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 2,595,749 G→A 30.4% V283V (GTC→GTT)  arsB ← arsenite/antimonite transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,595,7490GA30.4% 175.0 / 94.1 128V283V (GTC→GTT) arsBarsenite/antimonite transporter
Reads supporting (aligned to +/- strand):  ref base G (47/42);  new base A (24/15);  total (71/57)
Fisher's exact test for biased strand distribution p-value = 4.41e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.76e-01

Only 100 of 132 total aligned reads displayed.

AGAAAGATATTCCGTTAATCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGTTTAGCGACGACA  >  minE/2595680‑2595818
                                                                     |                                                                     
aGAAAGATATTCCGTTAATCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGa                                                                      <  1:3853428/71‑1 (MQ=255)
         ttCCGTTAATCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGcc                                                             <  1:2489466/71‑1 (MQ=255)
         ttCCGTTAATCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGcc                                                             <  1:5425102/71‑1 (MQ=255)
         ttCCGTTAATCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGc                                                              <  1:3432388/70‑1 (MQ=255)
          tCCGTTAATCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGc                                                              >  1:4215380/1‑69 (MQ=255)
           ccGTTAATCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAg                                                           >  1:3361955/1‑71 (MQ=255)
           ccGTGAACCCTGCATTGCGCAGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGc                                                              >  1:1502745/1‑68 (MQ=255)
               tAATCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAggggg                                                       >  1:2040723/1‑71 (MQ=255)
                aaTCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAggggg                                                       <  1:1520409/70‑1 (MQ=255)
                  tCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGcc                                                             <  1:4721886/62‑1 (MQ=255)
                  tCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGc                                                      <  1:395201/69‑1 (MQ=255)
                  tCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGc                                                      <  1:177354/69‑1 (MQ=255)
                  tCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGc                                                      <  1:553044/69‑1 (MQ=255)
                    cGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCt                                                                <  1:4706119/57‑1 (MQ=255)
                      gCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATc                                                                 >  1:1661599/1‑54 (MQ=255)
                      gCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATc                                                                 >  1:5226937/1‑54 (MQ=255)
                       cATTGCGCAGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATc                                                                 >  1:5480005/1‑53 (MQ=255)
                       cATTGCGCAGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATc                                                                 >  1:4682640/1‑53 (MQ=255)
                       cATTGCGCAGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACcgcg                                                <  1:4448805/70‑1 (MQ=255)
                       cATTGCGCAGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACcgcg                                                >  1:1359999/1‑70 (MQ=255)
                         ttGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAg                                             <  1:4337317/71‑1 (MQ=255)
                          tGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACa                                                                    <  1:4538676/47‑1 (MQ=255)
                          tGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACa                                                                    <  1:5031492/47‑1 (MQ=255)
                          tGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACa                                                                    <  1:1414141/47‑1 (MQ=255)
                           gcgcAGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGAt                                                                  >  1:495566/1‑48 (MQ=255)
                           gcgcAGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATc                                                                 >  1:5028236/1‑49 (MQ=255)
                           gcgcAGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCAtggc                                                        >  1:5300690/1‑57 (MQ=255)
                           gcgcAGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCAtggc                                                        >  1:4981360/1‑57 (MQ=255)
                           gcgcAGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAgg                                            <  1:1432804/70‑1 (MQ=255)
                           gcgcAGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGa                                           >  1:2553886/1‑71 (MQ=255)
                           gcgcAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACaa                                                                   >  1:1478264/1‑47 (MQ=255)
                           gcgcAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATc                                                                 >  1:838677/1‑49 (MQ=255)
                           gcgcAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATc                                                                 >  1:3537021/1‑49 (MQ=255)
                           gcgcAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGa                                           >  1:3144657/1‑71 (MQ=255)
                           gcgcAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGa                                           >  1:5474520/1‑71 (MQ=255)
                            cgcAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGAc                                          <  1:3725958/71‑1 (MQ=255)
                               aGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACttt                                       <  1:3163220/71‑1 (MQ=255)
                               aGGCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACtt                                        <  1:5676939/70‑1 (MQ=255)
                                ggCCATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACtt                                        <  1:2847733/69‑1 (MQ=255)
                                 gCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTAc                                     >  1:3936944/1‑71 (MQ=255)
                                  ccATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACtttt                                      >  1:3117455/1‑68 (MQ=255)
                                  ccATAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACtttt                                      >  1:176605/1‑68 (MQ=255)
                                  ccATAAACCACCAGATACATGCCGAGCGAGAAGATGACa                                                                    <  1:5257019/39‑1 (MQ=255)
                                  ccATAAACCACCAGATACATGCCGAGCGAGAAGATGACa                                                                    <  1:4000200/39‑1 (MQ=255)
                                  ccATAAACCACCAGATACATGCCGAGCGAGAAGATGACa                                                                    <  1:5705/39‑1 (MQ=255)
                                   cATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAgg                                                          >  1:1163787/1‑48 (MQ=255)
                                    aTAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGAc                                          <  1:4301593/63‑1 (MQ=255)
                                    aTAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGAc                                          <  1:1097056/63‑1 (MQ=255)
                                    aTAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGAc                                          <  1:3387899/63‑1 (MQ=255)
                                    aTAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGAc                                          <  1:192852/63‑1 (MQ=255)
                                    aTAGACCACGATGTACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACTTTTccgg                                  <  1:906572/71‑3 (MQ=255)
                                    aTAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGc                                                              <  1:3889169/43‑1 (MQ=255)
                                    aTAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGc                                                              <  1:880141/43‑1 (MQ=255)
                                    aTAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAg                                                           >  1:5338130/1‑46 (MQ=255)
                                     tAAACCACCAGATATATGCCGAGCGAGAAGATGACAATCTGCCAggggg                                                       <  1:4049902/49‑1 (MQ=255)
                                     tAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGc                                                              <  1:3462397/42‑1 (MQ=255)
                                     tAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTAccc                                   <  1:299542/69‑1 (MQ=255)
                                      aaaCCACCAGATACATGCCGAGCGAGAAGATGACAAt                                                                  >  1:2089697/1‑37 (MQ=255)
                                       aaCCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCa                                                            >  1:5545859/1‑42 (MQ=255)
                                       aaCCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCa                                                            >  1:1519448/1‑42 (MQ=255)
                                       aaCCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCAcc                                                   >  1:5229832/1‑51 (MQ=255)
                                        accaccAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTAtt                              <  1:719264/71‑1 (MQ=255)
                                         ccaccaGATACATGCCGAGCGAGAAGATGACAATCTGc                                                              >  1:1349049/1‑38 (MQ=255)
                                         ccaccaGATACATGCCGAGCGAGAAGATGACAATCTGc                                                              >  1:1025090/1‑38 (MQ=255)
                                         ccaccaGATACATGCCGAGCGAGAAGATGACAATCTGc                                                              >  1:457586/1‑38 (MQ=255)
                                          caccaGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTaa                            <  1:257140/71‑1 (MQ=255)
                                              aGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAg                                             >  1:1036405/1‑50 (MQ=255)
                                              aGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCg                         >  1:4186020/1‑70 (MQ=255)
                                                aTACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTaa                            >  1:2385229/1‑65 (MQ=255)
                                                aTACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGc                        <  1:5510319/69‑1 (MQ=255)
                                                aTACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCAt                      <  1:1668657/71‑1 (MQ=255)
                                                 tACATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACTTTTCCGGTGTTGATCGAAt                      <  1:1845789/70‑1 (MQ=255)
                                                  aCATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACTTTTCCGGTGTTGATCGAATGa                    >  1:5107652/1‑71 (MQ=255)
                                                   cATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACTTTTCCGGtg                                >  1:4378702/1‑57 (MQ=255)
                                                   cATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACTTTTCCGGtg                                >  1:5689818/1‑57 (MQ=255)
                                                   cATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACTTTTCCGGTGTTGATCGAATGAc                   >  1:180481/1‑71 (MQ=255)
                                                   cATGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACTTTTCCGGTGTTGATCGAATGAc                   >  1:1060550/1‑71 (MQ=255)
                                                    aTGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGAc                                          <  1:2724969/47‑1 (MQ=255)
                                                     tGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTa                             <  1:2975736/59‑1 (MQ=255)
                                                     tGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACttt                                       <  1:4840439/49‑1 (MQ=255)
                                                     tGCCCAGTGAGAAAATAACGATCTGCCATGGCGCACCGCGCAGGACttt                                       <  1:4282590/49‑1 (MQ=255)
                                                      gCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGa                                           >  1:3895040/1‑44 (MQ=255)
                                                       ccGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACcgcg               <  1:2361138/71‑1 (MQ=255)
                                                          agcgagAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGt              >  1:3451039/1‑69 (MQ=255)
                                                          agcgagAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGt              >  1:1319482/1‑69 (MQ=255)
                                                               gaagaTGACAATCTTCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGtt             >  1:5332342/1‑65 (MQ=255)
                                                               gaagaTGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGtt             >  1:189617/1‑65 (MQ=255)
                                                               gaagaTGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGtt             >  1:2317579/1‑65 (MQ=255)
                                                               gaagaTGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGTTTAGcga       >  1:713254/1‑71 (MQ=255)
                                                                aagaTGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACcgc                >  1:1017289/1‑61 (MQ=255)
                                                                   aTGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTa                             <  1:4941705/45‑1 (MQ=255)
                                                                   aTGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGTTTAGcgacga    >  1:4151440/1‑70 (MQ=255)
                                                                   aTGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGTTTAGCgacgac   <  1:1089310/71‑1 (MQ=255)
                                                                   aTGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGTTTAGCgacgac   <  1:4033741/71‑1 (MQ=255)
                                                                    tGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGa                    >  1:3044607/1‑53 (MQ=255)
                                                                    tGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGa                    >  1:2307392/1‑53 (MQ=255)
                                                                    tGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGTTTAGCGACGACa  <  1:694332/71‑1 (MQ=255)
                                                                     gACAATCTGCCAGGTGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGTTTAGc         >  1:2381533/1‑63 (MQ=255)
                                                                     gACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGTTTAGc         >  1:1600690/1‑63 (MQ=255)
                                                                     gACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGTTTAGc         >  1:2823252/1‑63 (MQ=255)
                                                                     |                                                                     
AGAAAGATATTCCGTTAATCCGGCATTGCGCAGGCCATAAACCACCAGATACATGCCGAGCGAGAAGATGACAATCTGCCAGGGGGCACCGCGCAGGACTTTACCCGTATTAATCGCATGACCGCGTTTAGCGACGACA  >  minE/2595680‑2595818

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