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 F1 I0 R1 2892 75.3 5698161 66.1% 3766484 59.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,015,169 C→A 40.6% V300V (GTG→GTT)  fumA ← aerobic Class I fumarate hydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,015,1690CA40.6% 123.6 / 119.2 123V300V (GTG→GTT) fumAaerobic Class I fumarate hydratase
Reads supporting (aligned to +/- strand):  ref base C (27/46);  new base A (20/30);  total (47/76)
Fisher's exact test for biased strand distribution p-value = 8.50e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.37e-01

Only 100 of 123 total aligned reads displayed.

ATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGATC  >  minE/1015100‑1015238
                                                                     |                                                                     
atTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCa                                                                      >  1:4396330/1‑71 (MQ=255)
 ttACGGTCAGCGGAGCAGGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAAc                                                                     >  1:4556881/1‑71 (MQ=255)
   aCGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCAcgc                                                                   >  1:4825718/1‑71 (MQ=255)
    cGGTCAGCGGAGCAGGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAAcgcg                                                                  <  1:4992893/71‑1 (MQ=255)
     ggTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCAcgc                                                                   <  1:124909/69‑1 (MQ=255)
     ggTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCgg                                                                 <  1:5372228/71‑1 (MQ=255)
         agcggagcagGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGt                                                             >  1:5579161/1‑71 (MQ=255)
         agcagagcagGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATg                                                              <  1:4931657/70‑1 (MQ=255)
           cagagcagGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCAcgcg                                                                  <  1:746093/64‑1 (MQ=255)
           cagagcagGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCg                                                           <  1:3972203/71‑1 (MQ=255)
            ggagcagGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCg                                                           <  1:4468816/69‑1 (MQ=255)
            ggagcagGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGt                                                          <  1:1066112/70‑1 (MQ=255)
            agagcagGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCg                                                           <  1:1080131/70‑1 (MQ=255)
                 agGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGcgcg                                                     <  1:1667475/71‑1 (MQ=255)
                  ggAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGa                                                    <  1:4194267/71‑1 (MQ=255)
                    agaCGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAg                                                  <  1:3884826/71‑1 (MQ=255)
                    agaCGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAg                                                  <  1:2178286/71‑1 (MQ=255)
                    agaCGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAg                                                  <  1:1877428/71‑1 (MQ=255)
                    agaCGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAg                                                  <  1:550342/71‑1 (MQ=255)
                     gaCGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAg                                                  >  1:3118423/1‑70 (MQ=255)
                       cGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTAt                                               >  1:515647/1‑71 (MQ=255)
                        gCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTAtt                                              <  1:2853639/71‑1 (MQ=255)
                         cccATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTgcgc                                                      <  1:2241003/62‑1 (MQ=255)
                         cccATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTgcgc                                                      <  1:2705980/62‑1 (MQ=255)
                           cATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTac                                           >  1:3480242/1‑71 (MQ=255)
                           cATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTac                                           >  1:1605888/1‑71 (MQ=255)
                            atgccgaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTacc                                          <  1:5183224/68‑1 (MQ=255)
                             tACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTa                                                <  1:1456498/64‑1 (MQ=255)
                             tACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTacca                                         >  1:3721887/1‑71 (MQ=255)
                             tACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTacca                                         >  1:5632792/1‑71 (MQ=255)
                             tACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTacca                                         >  1:761644/1‑71 (MQ=255)
                             tACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTacca                                         >  1:4369366/1‑71 (MQ=255)
                               ccgaccgGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTAtt                                              >  1:3575939/1‑64 (MQ=255)
                               ccgaccgGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTac                                           <  1:5179/67‑1 (MQ=255)
                               ccgaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGt                                                             >  1:3366147/1‑49 (MQ=255)
                               ccgaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGt                                                             >  1:4965512/1‑49 (MQ=255)
                               ccgaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGt                                                             >  1:825820/1‑49 (MQ=255)
                               ccgaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTaccgc                                        >  1:426570/1‑68 (MQ=255)
                               ccgaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTaccgc                                        >  1:4794508/1‑68 (MQ=255)
                               ccgaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTaccgc                                        >  1:3481542/1‑68 (MQ=255)
                                 gaccgGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTacca                                         >  1:3642065/1‑67 (MQ=255)
                                 gaccgGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTAccacca                                      >  1:4505366/1‑70 (MQ=255)
                                 gaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTAccgcca                                      <  1:3716781/70‑1 (MQ=255)
                                     gggCAGGATGCGCCGTGACGTGGCAGACGGATAAcgcg                                                                  <  1:807345/38‑1 (MQ=25)
                                      ggCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTacc                                          >  1:5363327/1‑61 (MQ=255)
                                        cAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTAttt                                             <  1:868233/56‑1 (MQ=255)
                                        cAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTgcg                               >  1:1080147/1‑70 (MQ=255)
                                         aGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCaa                                     <  1:5593544/63‑1 (MQ=255)
                                          ggATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGt                                                          <  1:127455/41‑1 (MQ=255)
                                          ggATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTAccacca                                      <  1:5354759/61‑1 (MQ=255)
                                          ggATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCAAACTgcgcgc                            <  1:4035730/71‑3 (MQ=255)
                                           gATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCAcc                           >  1:3962549/1‑71 (MQ=255)
                                           gATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCAcc                           <  1:5543269/71‑1 (MQ=255)
                                             tGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTa                                            >  1:3893736/1‑52 (MQ=255)
                                             tGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGcc                           >  1:3596755/1‑69 (MQ=255)
                                               cgcCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCaaa                                    >  1:4584156/1‑58 (MQ=255)
                                                 ccGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTa                                                <  1:3373173/44‑1 (MQ=255)
                                                 ccGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGAcc                     <  1:2376671/71‑1 (MQ=255)
                                                   gTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGAc                      >  1:4623788/1‑68 (MQ=255)
                                                   gTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGt                                                 <  1:3361534/41‑1 (MQ=19)
                                                    tGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTg                                 <  1:2570077/56‑1 (MQ=255)
                                                    tGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGAc                      <  1:502631/67‑1 (MQ=255)
                                                    tGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGACCGAg                  >  1:2578522/1‑71 (MQ=255)
                                                    tGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGACCGAg                  >  1:4065708/1‑71 (MQ=255)
                                                      aCGTGGCAGGCGAATCACGCGGATGTCGTGAGCGaa                                                   >  1:2317324/1‑36 (MQ=255)
                                                      aCGTGGCAGGCGAATCACGCGGATGTCGTGAGCGaa                                                   >  1:5136532/1‑36 (MQ=255)
                                                      aCGTGGCAGGCGAATCACGCGGATGTCGTGAGCGaa                                                   >  1:4967136/1‑36 (MQ=255)
                                                      aCGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAAc                                   >  1:1413253/1‑52 (MQ=255)
                                                      aCGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGAt                >  1:2604271/1‑71 (MQ=255)
                                                      aCGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGACCGAgtt                <  1:4418975/71‑3 (MQ=255)
                                                      aCGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGACCGAgt                 <  1:2940748/70‑2 (MQ=255)
                                                       cGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCaa                                     <  1:4456709/49‑1 (MQ=255)
                                                       cGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCaa                                     <  1:2038483/49‑1 (MQ=255)
                                                       cGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCaa                                     <  1:4795824/49‑1 (MQ=255)
                                                        gTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGAttt              <  1:1041444/71‑1 (MQ=255)
                                                        gTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTac                                           >  1:5358333/1‑42 (MQ=19)
                                                        gTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTa                                            >  1:5089089/1‑41 (MQ=19)
                                                        gTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTAccgcca                                      <  1:3620845/47‑1 (MQ=255)
                                                        gTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTAccgcca                                      <  1:2529111/47‑1 (MQ=255)
                                                        gTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTAccgcca                                      <  1:2535727/47‑1 (MQ=255)
                                                         tGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGt                                                 <  1:3063156/35‑1 (MQ=255)
                                                         tGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTAtt                                              <  1:404026/38‑1 (MQ=255)
                                                         tGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTAt                                               <  1:653327/37‑1 (MQ=255)
                                                         tGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGAtttt             <  1:3543896/71‑1 (MQ=255)
                                                         tGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGACCGAGtttct             <  1:2047092/71‑3 (MQ=255)
                                                            cAGGCGAATCACGGGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTgcg          >  1:1171393/1‑71 (MQ=255)
                                                               gCGAATCACGCGGATGTCGTGAGCGAAGTATTTAccacca                                      <  1:2215510/40‑1 (MQ=255)
                                                               gCGAATCACGCGGATGTCGTGAGCGAAGTATTTAccacca                                      <  1:1577095/40‑1 (MQ=255)
                                                               gCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGAtttt             <  1:5482134/65‑1 (MQ=255)
                                                               gCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGAtt               <  1:2447383/63‑1 (MQ=255)
                                                               gCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGAtt               <  1:2112087/63‑1 (MQ=255)
                                                                cGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGAtttt             <  1:2560277/64‑1 (MQ=255)
                                                                 gAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAAc                                   >  1:79475/1‑41 (MQ=255)
                                                                 gAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCg     <  1:1013409/71‑1 (MQ=255)
                                                                 gAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCg     <  1:2654855/71‑1 (MQ=255)
                                                                   aTCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGAt   >  1:1184460/1‑71 (MQ=255)
                                                                    tCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGAt   <  1:4131335/70‑1 (MQ=255)
                                                                    tCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGATc  <  1:2457002/71‑1 (MQ=255)
                                                                    tCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGATc  <  1:2829265/71‑1 (MQ=255)
                                                                    tCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGATc  <  1:3377907/71‑1 (MQ=255)
                                                                     |                                                                     
ATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGATC  >  minE/1015100‑1015238

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