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
A6 F21 I0 R2 370 72.1 3738297 91.5% 3420541 62.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,012,045 T→C 56.3% M63V (ATG→GTG)  yqhA ← conserved inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,012,0450TC56.3% 47.2 / 132.9 103M63V (ATG→GTG) yqhAconserved inner membrane protein
Reads supporting (aligned to +/- strand):  ref base T (29/16);  new base C (34/24);  total (63/40)
Fisher's exact test for biased strand distribution p-value = 6.84e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01

Only 100 of 108 total aligned reads displayed.

CAGCTGTGAGACGAAATTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGATATTCGGCAGTACGT  >  minE/2011977‑2012113
                                                                    |                                                                    
cAGCTGTGAGACGAAATTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCacat                                                                    >  1:474096/1‑71 (MQ=255)
 aGCTGTGAGACGAAATTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATc                                                                   >  1:1761622/1‑71 (MQ=255)
  gCTGTGAGACGAAATTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCACATcc                                                                  <  1:3360304/71‑1 (MQ=255)
  gCTGTGAGACGAAATTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCACATc                                                                   >  1:2305987/1‑70 (MQ=255)
     gtgAGACGAAATTCTCATAACCGGAAAACATCACCATCACGAGCAAACCGCCAACCAGCGTCacat                                                                    >  1:1109528/1‑66 (MQ=255)
     gtgAGACGAAATTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCacat                                                                    >  1:2687646/1‑66 (MQ=255)
        agaCGAAATTCTCATAACCGGAAAACATCACCATCACCAGCAAACCTCCAACCAGCGTCACATCCACCAGc                                                            <  1:35122/71‑1 (MQ=255)
          aCGAAATTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATccac                                                                >  1:2963635/1‑65 (MQ=255)
           cGAAATTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGTGTCATATCCACCAGCGa                                                          >  1:24499/1‑70 (MQ=255)
           cGAAATTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATCCACCAGCGa                                                          >  1:714883/1‑70 (MQ=255)
              aaTTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATCCACCAGCGa                                                          >  1:2644990/1‑67 (MQ=255)
              aaTTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAg                                                       >  1:3132352/1‑70 (MQ=255)
              aaTTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGc                                                      <  1:1487839/71‑1 (MQ=255)
              aaTTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGc                                                      <  1:2284995/71‑1 (MQ=255)
              aaTTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAg                                                       >  1:2632832/1‑70 (MQ=255)
              aaTTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAg                                                       >  1:3069429/1‑70 (MQ=255)
              aaTTCTCATAACCGGAAAACATCAACATCACCAGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAg                                                       >  1:1632547/1‑70 (MQ=255)
                 tctcATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCaa                                                    >  1:338581/1‑70 (MQ=255)
                     aTAACCTGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAacac                                                 >  1:3550920/1‑69 (MQ=255)
                     aTAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAacac                                                 >  1:1546338/1‑69 (MQ=255)
                     aTAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAaca                                                  <  1:2017603/68‑1 (MQ=255)
                     aTAACCGGAAAACAACACCATCACCAGCAAACCGCCAACCAGCGTCACATCAACCAGCGACAGCAacac                                                 >  1:1047441/1‑69 (MQ=255)
                      tAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAg                                              >  1:1931848/1‑71 (MQ=255)
                         ccGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCACATccacc                                                               <  1:892050/51‑1 (MQ=255)
                         ccGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCACATccacc                                                               <  1:491871/51‑1 (MQ=255)
                         ccGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCACATccacc                                                               <  1:869635/51‑1 (MQ=255)
                         ccGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCa                                                     <  1:2117197/61‑1 (MQ=255)
                          cGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATCCACCAGc                                                            <  1:2008297/53‑1 (MQ=255)
                          cGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATCCACCAGc                                                            <  1:3736376/53‑1 (MQ=255)
                          cGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATc                                          <  1:255667/71‑1 (MQ=255)
                            gAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCa                                         >  1:2077479/1‑70 (MQ=255)
                             aaaaCATCACCATCACCAGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCaaa                                       >  1:2727326/1‑71 (MQ=255)
                               aaCATCACCATCACCAGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCa                                                     <  1:3129566/55‑1 (MQ=255)
                               aaCATCACCATCACCAGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCa                                                     <  1:431192/55‑1 (MQ=255)
                                  atcaccatcaccAGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGa                                  <  1:56889/71‑1 (MQ=255)
                                   tcaccatcaccaGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAaca                                                  <  1:1441746/54‑1 (MQ=255)
                                   tcaccatcaccaGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGAt                                 >  1:434896/1‑71 (MQ=255)
                                   tcaccatcaccaGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGAt                                 >  1:901629/1‑71 (MQ=255)
                                   tcaccatcaccaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGAt                                 <  1:175563/71‑1 (MQ=255)
                                   tcaccatcaccaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGAt                                 >  1:3407050/1‑71 (MQ=255)
                                   tcaccatcaccaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGAt                                 >  1:930451/1‑71 (MQ=255)
                                   tcaccatcaccaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGAt                                 >  1:2704879/1‑71 (MQ=255)
                                    caccatcaccaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGAtt                                >  1:279198/1‑71 (MQ=255)
                                     accatcaccaGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAaca                                                  >  1:3536616/1‑52 (MQ=255)
                                     accatcaccaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTc                               <  1:3490914/71‑1 (MQ=255)
                                     accatcaccaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTc                               >  1:572757/1‑71 (MQ=255)
                                     accatcaccaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTc                               <  1:2578688/71‑1 (MQ=255)
                                      ccatcaccaGCAAACCGCCAAACAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTcc                              >  1:865926/1‑71 (MQ=255)
                                         tcaccaGCAAACCGCCAACCAGCGTCATATCCACCAGCGa                                                          >  1:1495438/1‑40 (MQ=255)
                                         tcaccaGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGc                            >  1:2522039/1‑70 (MQ=255)
                                         tcaccaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGcc                           <  1:2735687/71‑1 (MQ=255)
                                          caccaGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCg                             >  1:946690/1‑68 (MQ=255)
                                          caccaGCAAACCGCCAACCAGCGTCACATCCACCAGc                                                            >  1:72012/1‑37 (MQ=255)
                                          caccaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACa                                                        >  1:2546129/1‑41 (MQ=255)
                                          caccaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGAtt                                <  1:3669210/65‑1 (MQ=255)
                                           accaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCAt                         >  1:31416/1‑71 (MQ=255)
                                            ccaGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATc                        >  1:3172179/1‑71 (MQ=255)
                                             caGCAAACCGCCACCCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATc                        >  1:3147865/1‑70 (MQ=255)
                                             caGCAAACCGCCAACCAGTGTCATATCCACCAGCGACAGCAACACGAGGATCaa                                        <  1:3639822/54‑1 (MQ=255)
                                             caGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCaa                                                    <  1:2740972/42‑1 (MQ=255)
                                             caGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCaa                                                    <  1:1817445/42‑1 (MQ=255)
                                             caGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCaa                                                    <  1:2078523/42‑1 (MQ=255)
                                             caGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCaa                                                    <  1:2241317/42‑1 (MQ=255)
                                              aGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGTTCAAATCTGATTCCGCCATc                        >  1:2924981/1‑69 (MQ=255)
                                              aGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTc                               >  1:1976657/1‑62 (MQ=255)
                                              aGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTc                               >  1:3327127/1‑62 (MQ=255)
                                              aGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTc                               >  1:1890048/1‑62 (MQ=255)
                                              aGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTc                               >  1:768264/1‑62 (MQ=255)
                                              aGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTc                               >  1:271086/1‑62 (MQ=255)
                                              aGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATc                        >  1:3569197/1‑69 (MQ=255)
                                              aGCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCga                      <  1:1045887/71‑1 (MQ=255)
                                              aGCAAACCGCCAACCAGCGACATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCga                      <  1:1172324/71‑1 (MQ=255)
                                               gCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAaca                                                  >  1:1169567/1‑42 (MQ=255)
                                               gCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAAt                                      >  1:2156609/1‑54 (MQ=255)
                                               gCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATc                        >  1:2995938/1‑68 (MQ=255)
                                               gCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATc                        >  1:2797760/1‑68 (MQ=255)
                                               gCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATc                        >  1:647921/1‑68 (MQ=255)
                                               gCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCgag                     <  1:880488/71‑1 (MQ=255)
                                               gCAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCgag                     <  1:1310043/71‑1 (MQ=255)
                                                cAAACCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCgag                     >  1:3170839/1‑70 (MQ=255)
                                                 aaaCCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCgaga                    <  1:1716702/70‑1 (MQ=255)
                                                 aaaCCGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCg                       >  1:3015649/1‑67 (MQ=255)
                                                   aCCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCgag                     >  1:1751704/1‑67 (MQ=255)
                                                    ccGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCCAGGAGat                >  1:3010257/1‑71 (MQ=255)
                                                     cGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGata               <  1:2877262/71‑1 (MQ=255)
                                                     cGCCAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGat                >  1:593873/1‑70 (MQ=255)
                                                       ccAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAAt                                      >  1:1933245/1‑46 (MQ=255)
                                                       ccAACCAGCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGATAtt             >  1:3504524/1‑71 (MQ=255)
                                                        cAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATAGAGAAGATATTc            <  1:950078/71‑1 (MQ=255)
                                                           ccAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGttcttccag         >  1:1020770/1‑68 (MQ=255)
                                                           ccAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGATATTCgg          >  1:2467866/1‑70 (MQ=255)
                                                              gCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGATATTCGGCAg       >  1:2334965/1‑70 (MQ=255)
                                                              gCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGagaa                   >  1:1139147/1‑58 (MQ=255)
                                                              gCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGATATTCGGCAg       >  1:138587/1‑70 (MQ=255)
                                                              gCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGATATTCGGCAGt      <  1:696375/71‑1 (MQ=255)
                                                              gCGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGATATTCGGCAGt      <  1:2583950/71‑1 (MQ=255)
                                                               cGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGATATTCGGCAGt      <  1:538505/70‑1 (MQ=255)
                                                               cGTCACATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGATATTCGGCAGTa     >  1:449280/1‑71 (MQ=255)
                                                                gTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGATATTCGGCAGTAc    >  1:624905/1‑71 (MQ=255)
                                                                   atatCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGATATTCGGCAGTACGt  >  1:79624/1‑70 (MQ=255)
                                                                    |                                                                    
CAGCTGTGAGACGAAATTCTCATAACCGGAAAACATCACCATCACCAGCAAACCGCCAACCAGCGTCATATCCACCAGCGACAGCAACACGAGGATCAAATCTGATTCCGCCATCGAGAAGATATTCGGCAGTACGT  >  minE/2011977‑2012113

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