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 1,015,175 G→A 41.7% I298I (ATC→ATT)  fumA ← aerobic Class I fumarate hydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,015,1750GA41.7% 76.4 / 138.7 127I298I (ATC→ATT) fumAaerobic Class I fumarate hydratase
Reads supporting (aligned to +/- strand):  ref base G (30/44);  new base A (22/31);  total (52/75)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.49e-01

Only 100 of 129 total aligned reads displayed.

GGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGATCAGCAAT  >  minE/1015105‑1015244
                                                                      |                                                                     
    agcggagcagGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGt                                                                   >  1:5579161/1‑71 (MQ=255)
    agcagagcagGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATg                                                                    <  1:4931657/70‑1 (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)
       agagcagGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCg                                                                 <  1:4041384/70‑1 (MQ=255)
            agGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGcgcg                                                           <  1:1667475/71‑1 (MQ=255)
             ggAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGcgcg                                                           >  1:5622372/1‑70 (MQ=255)
               agaCGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAg                                                        <  1:3884826/71‑1 (MQ=255)
               agaCGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAg                                                        <  1:550342/71‑1 (MQ=255)
               agaCGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAg                                                        <  1:1877428/71‑1 (MQ=255)
               agaCGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAg                                                        <  1:2178286/71‑1 (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)
                     ccATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTa                                                  <  1:3622182/71‑1 (MQ=255)
                      cATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTac                                                 >  1:1605888/1‑71 (MQ=255)
                       atgccgaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTacc                                                <  1:5183224/68‑1 (MQ=255)
                        tACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTa                                                      <  1:1456498/64‑1 (MQ=255)
                        tACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTAttt                                                   <  1:5133979/67‑1 (MQ=255)
                        tACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTAttt                                                   <  1:2331947/67‑1 (MQ=255)
                        tACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTacca                                               >  1:3721887/1‑71 (MQ=255)
                        tACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTacca                                               >  1:5632792/1‑71 (MQ=255)
                        tACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTacca                                               >  1:4369366/1‑71 (MQ=255)
                        tACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTacca                                               >  1:761644/1‑71 (MQ=255)
                          ccgaccgGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTAtt                                                    >  1:3575939/1‑64 (MQ=255)
                          ccgaccgGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTac                                                 <  1:5179/67‑1 (MQ=255)
                          ccgaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGt                                                                   >  1:825820/1‑49 (MQ=255)
                          ccgaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTaccgc                                              >  1:426570/1‑68 (MQ=255)
                          ccgaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTaccgc                                              >  1:3481542/1‑68 (MQ=255)
                           cgaccgGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTAccacca                                            <  1:3918109/71‑1 (MQ=255)
                           cgaccgGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTAccacca                                            <  1:766822/71‑1 (MQ=255)
                           cgaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTAccgcca                                            <  1:4751028/71‑1 (MQ=255)
                            gaccgGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTacca                                               >  1:3642065/1‑67 (MQ=255)
                            gaccgGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTAccacca                                            >  1:4505366/1‑70 (MQ=255)
                            gaccgGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTAccacca                                            >  1:1116641/1‑70 (MQ=255)
                            gaccgGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTAccgcca                                            <  1:3716781/70‑1 (MQ=255)
                                 ggCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTacc                                                >  1:5363327/1‑61 (MQ=255)
                                   cAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTAttt                                                   <  1:868233/56‑1 (MQ=255)
                                    aGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCaa                                           <  1:5593544/63‑1 (MQ=255)
                                     ggATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGt                                                                <  1:496128/41‑1 (MQ=255)
                                     ggATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTAccacca                                            <  1:5354759/61‑1 (MQ=255)
                                      gATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCAcc                                 <  1:4296266/71‑1 (MQ=255)
                                      gATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCAcc                                 >  1:3962549/1‑71 (MQ=255)
                                        tGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTa                                                  >  1:1404639/1‑52 (MQ=255)
                                        tGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCAcc                                 >  1:1704618/1‑69 (MQ=255)
                                        tGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTa                                                  >  1:3483944/1‑52 (MQ=255)
                                        tGCGCCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTa                                                  >  1:3893736/1‑52 (MQ=255)
                                          cgcCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCaaa                                          >  1:4584156/1‑58 (MQ=255)
                                          cgcCGTGACGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAg                              <  1:3368764/70‑1 (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                                                         >  1:4967136/1‑36 (MQ=255)
                                                 aCGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAAc                                         >  1:1413253/1‑52 (MQ=255)
                                                 aCGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGAt                      >  1:2604271/1‑71 (MQ=255)
                                                 aCGTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGACCGAgtt                      <  1:4418975/71‑3 (MQ=255)
                                                  cGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCaa                                           <  1:2038483/49‑1 (MQ=255)
                                                  cGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCaa                                           <  1:4795824/49‑1 (MQ=255)
                                                  cGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCaa                                           <  1:4456709/49‑1 (MQ=255)
                                                   gTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGAttt                    <  1:1041444/71‑1 (MQ=255)
                                                   gTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTac                                                 >  1:5358333/1‑42 (MQ=19)
                                                   gTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTa                                                  >  1:5089089/1‑41 (MQ=19)
                                                   gTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTAccgcca                                            <  1:2529111/47‑1 (MQ=255)
                                                   gTGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTAccgcca                                            <  1:3620845/47‑1 (MQ=255)
                                                    tGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGt                                                       <  1:3063156/35‑1 (MQ=255)
                                                    tGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTAtt                                                    <  1:404026/38‑1 (MQ=255)
                                                    tGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGAtttt                   <  1:3543896/71‑1 (MQ=255)
                                                    tGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGAtttt                   <  1:2860717/71‑1 (MQ=255)
                                                    tGGCAGACGGATAACGCGAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGACCGAGtttct                   <  1:2047092/71‑3 (MQ=255)
                                                       cAGGCGAATCACGGGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTgcg                >  1:1171393/1‑71 (MQ=255)
                                                          gCGAATCACGCGGATGTCGTGAGCGAAGTATTTAccacca                                            <  1:2215510/40‑1 (MQ=255)
                                                          gCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGAtttt                   <  1:5482134/65‑1 (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)
                                                             aaTCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAg                              >  1:5381085/1‑51 (MQ=255)
                                                              aTCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGAt         >  1:1184460/1‑71 (MQ=255)
                                                               tCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGAt         <  1:4131335/70‑1 (MQ=255)
                                                               tCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGATc        <  1:2457002/71‑1 (MQ=255)
                                                               tCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGATc        <  1:3377907/71‑1 (MQ=255)
                                                                 aCGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCAc                                  >  1:2862767/1‑43 (MQ=255)
                                                                 aCGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCAc                                  >  1:2506459/1‑43 (MQ=255)
                                                                  cgcgGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGATCAGc     <  1:3186520/71‑1 (MQ=255)
                                                                  cgcgAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGACCGAGttt                     <  1:5358661/55‑1 (MQ=255)
                                                                  cgcgAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGACCGAGttt                     <  1:1347161/55‑1 (MQ=255)
                                                                  cgcgAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGACCGAGttt                     <  1:2828699/55‑1 (MQ=255)
                                                                  cgcgAATGTCGTGCGCGAAGTATTTACCGCCAAACTGCGCGCCAAGACCGAGttt                     <  1:828371/55‑1 (MQ=255)
                                                                     ggATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGATCAGCAAt  >  1:2359578/1‑71 (MQ=255)
                                                                      |                                                                     
GGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGTGAGCGAAGTATTTACCACCAAACTGCGCACCCAGACCAAGATTTTGCGCTTCGATCAGCAAT  >  minE/1015105‑1015244

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