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 R1 2169 63.0 3952800 76.2% 3012033 62.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,595,514 C→T 24.6% V362I (GTT→ATT)  arsB ← arsenite/antimonite transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,595,5140CT24.6% 243.5 / 80.8 135V362I (GTT→ATT) arsBarsenite/antimonite transporter
Reads supporting (aligned to +/- strand):  ref base C (53/48);  new base T (20/13);  total (74/61)
Fisher's exact test for biased strand distribution p-value = 4.30e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.91e-01

Only 100 of 138 total aligned reads displayed.

AGTAGCGTAGCCAGGCTACCAATTGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAGTACCGTC  >  minE/2595444‑2595581
                                                                      |                                                                   
 gtagcgtagcCAGGCTACCAATTGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAAcc                                                                    <  1:2796306/71‑1 (MQ=255)
   agcgtagcCAGGCTACCAATTGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCa                                                                   <  1:1378962/70‑1 (MQ=255)
    gcgtagcCAGGCTACCAATTGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATc                                                                 >  1:2131489/1‑71 (MQ=255)
         gcCAGACTGCCAATCGGGGTGATTTTCGGGCCTAAATCACAGCCAATCACATTGGCATAAATCAtt                                                                 <  1:3134047/66‑2 (MQ=255)
           cAGACTGCCAATCGGGGTGATTTTCGGGCCTAAATCACAGCCAATCACATTGGCATAAATCATTGcctctt                                                          <  1:3613558/71‑1 (MQ=255)
               cTACCAATTGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGa                                                       >  1:3749195/1‑70 (MQ=255)
                tACCAATTGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGAt                                                      >  1:1270227/1‑70 (MQ=255)
                  ccAATTGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATaa                                                    <  1:3592426/70‑1 (MQ=255)
                  ccAATTGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATaa                                                    <  1:496167/70‑1 (MQ=255)
                  ccAATTGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAAc                                                   >  1:2744289/1‑71 (MQ=255)
                  ccAATTGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAAc                                                   <  1:686166/71‑1 (MQ=255)
                  ccAATCGGGGTGATTTTCGGGCCTAAATCACAGCCAATCACATTGGCATAAATCATTGCCTCTTTGacga                                                    <  1:1759982/70‑4 (MQ=255)
                     aTTGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGcc                                                <  1:448498/71‑1 (MQ=255)
                      ttGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCa                                               <  1:966097/71‑1 (MQ=255)
                      tcggggTGATTTTCGGGCCTAAATCACAGCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGc                                                 >  1:3146126/3‑69 (MQ=255)
                         gggTGATTTTCGGGCCTAAATCACAGCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAgtc                                            <  1:1039489/71‑3 (MQ=255)
                           gTAATTTTCTGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGc                                          >  1:3629754/1‑71 (MQ=255)
                           gTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATc                                                                 <  1:45937/48‑1 (MQ=255)
                             gaTTTTCGGGCCTAAATCACAGCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAGTCGCCg                                        >  1:2310222/2‑71 (MQ=255)
                              aTTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATc                                                                 >  1:3061579/1‑45 (MQ=255)
                              aTTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATc                                                                 >  1:1823567/1‑45 (MQ=255)
                              aTTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAAGGCCAGATGCCGt                                       >  1:3657593/1‑71 (MQ=255)
                              aTTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCg                                        <  1:3725864/70‑1 (MQ=255)
                              aTTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCg                                        <  1:3632583/70‑1 (MQ=255)
                              aTTTTCGGTCCCAAATCGCACCCAATCACATTGGCATAAACCATc                                                                 >  1:3530414/1‑45 (MQ=255)
                              aTTTTCGGGCCTAAATCACAGCCAATCACATTGGCATAAATCATTGCCTCttt                                                         >  1:1575010/1‑53 (MQ=255)
                              aTTTTCGGGCCTAAATCACAGCCAATCACATTGGCATAAATCATTGCCTCttt                                                         >  1:3659092/1‑53 (MQ=255)
                              aTTTTCGGGCCTAAATCACAGCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAg                                              <  1:2776004/64‑1 (MQ=255)
                              aTTTTCGGGCCTAAATCACAGCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAg                                              <  1:373726/64‑1 (MQ=255)
                               ttttCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGctt                                                             <  1:1153299/48‑1 (MQ=255)
                               ttttCGGGCCTAAATCACAGCTAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAGTCGCCGta                                      <  1:281000/71‑2 (MQ=255)
                                 ttCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGtgct                                    >  1:1834918/1‑71 (MQ=255)
                                 ttCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGtgct                                    >  1:1318215/1‑71 (MQ=255)
                                  tCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGtgctg                                   >  1:1079007/1‑71 (MQ=255)
                                   cGGGCCTAAATCACAGCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAGTCGCCGtactc                                   <  1:1014757/70‑2 (MQ=255)
                                    ggTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGtgctgc                                  >  1:1098596/1‑70 (MQ=255)
                                    ggTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGcc                                 <  1:2138816/71‑1 (MQ=255)
                                     gTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCa                                <  1:3379826/71‑1 (MQ=255)
                                     gTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCa                                <  1:3081292/71‑1 (MQ=255)
                                      tCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTg                                                        <  1:2384325/46‑1 (MQ=255)
                                      tCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTg                                                        <  1:2643761/46‑1 (MQ=255)
                                      tCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCat                                              <  1:3070565/56‑2 (MQ=255)
                                      tCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGtg                                      <  1:3699881/64‑1 (MQ=255)
                                      tCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGtg                                      <  1:1221579/64‑1 (MQ=255)
                                       cccAAATCGAAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCAt                               >  1:556/1‑70 (MQ=255)
                                         cAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGAt                                            >  1:1126735/1‑55 (MQ=255)
                                         cAAATCGCAGCCAATCACATTGGCATAAAACATCGCTTCTTTGATaa                                                    >  1:1108861/1‑47 (MQ=255)
                                          aaaTCGCAGCCAATCACATTGGCATAAACCATCGctt                                                             >  1:3549646/1‑37 (MQ=255)
                                          aaaTCACAGCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAgt                                             >  1:609924/1‑52 (MQ=255)
                                          aaaTCACAGCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAGTCGCCGTACTCCCGTCAAt                           >  1:3493069/1‑71 (MQ=255)
                                           aaTCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGtgc                                     >  1:3524820/1‑60 (MQ=255)
                                           aaTCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGtgc                                     >  1:96736/1‑60 (MQ=255)
                                           aaTCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATg                          >  1:1673561/1‑71 (MQ=255)
                                           aaTCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATg                          >  1:1132875/1‑71 (MQ=255)
                                           aaTCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATg                          >  1:1919377/1‑71 (MQ=255)
                                           aaTCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATg                          >  1:899769/1‑71 (MQ=255)
                                           aaTCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATg                          <  1:2865012/71‑1 (MQ=255)
                                           aaTCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATg                          <  1:2090554/71‑1 (MQ=255)
                                           aaTCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATg                          >  1:2405114/1‑71 (MQ=255)
                                           aaTCACAGCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAGTCGCCGta                                      >  1:743546/1‑58 (MQ=255)
                                           aaTCACAGCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAGTCGCCGTACTCCCGTCAAtc                          >  1:1814704/1‑70 (MQ=255)
                                            aTCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCa                                >  1:3412466/1‑64 (MQ=255)
                                            aTCACAGCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAGTCGCCGTACTCCCGTCaa                            <  1:3923911/68‑1 (MQ=255)
                                              cGCAGCCAATCACATTGGCATAAACCATCGGTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGa                        >  1:810901/1‑70 (MQ=255)
                                                cAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACaa                     <  1:2174292/71‑1 (MQ=255)
                                                 aGCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAGTCGCCGTACTCCCGTCAATCGACagc                    >  1:2383520/1‑69 (MQ=255)
                                                 aGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAAc                    <  1:1588070/71‑1 (MQ=255)
                                                  gCCAATCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAGTCGCCGTACTCCCGTCAATCGACAGcg                   <  1:925202/71‑1 (MQ=255)
                                                   ccAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAg                                              >  1:200458/1‑43 (MQ=255)
                                                    gaaTCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCAGCAATGGACAAcgcg                 <  1:1149530/70‑1 (MQ=255)
                                                    cAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAAcgc                  <  1:1894529/70‑1 (MQ=255)
                                                     aaTCACATTGGCATAAATCATTGCCTCTTTGACGACGCCAGTCGCCGTACTCCCGTCAATCGACAgcgcac                >  1:782482/1‑69 (MQ=255)
                                                     aaTCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATc                              <  1:3800795/57‑1 (MQ=255)
                                                     aaTCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACgcgc                >  1:3837660/1‑71 (MQ=255)
                                                     aaTCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACgcgc                <  1:301922/71‑1 (MQ=255)
                                                      aTCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGcc                                         <  1:794708/45‑1 (MQ=255)
                                                      aTCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCg                                        >  1:3140959/1‑46 (MQ=255)
                                                      aTCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGt                                       >  1:2633605/1‑47 (MQ=255)
                                                      aTCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCa                                <  1:1290411/54‑1 (MQ=255)
                                                      aTCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACgcgc                >  1:2994059/1‑70 (MQ=255)
                                                       taacaTTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATg                          >  1:377381/3‑59 (MQ=255)
                                                       tCACATTGGCATAAACCATCGCTTCTTTGATAACGCTAGATGCCGTGCTGCCATCAATGGACAACGCGcc               >  1:3386963/1‑70 (MQ=255)
                                                       tCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATg                          >  1:2580474/1‑59 (MQ=255)
                                                       tCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACGCGcc               >  1:2944604/1‑70 (MQ=255)
                                                       tCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACGCGcc               >  1:729627/1‑70 (MQ=255)
                                                         acaTTGGCATAAATCATTGCCTCTTTGACGACGCCAGTCGCCGTACTCCCGTCAATCGACAGCGCACCaat            >  1:831528/1‑70 (MQ=255)
                                                         acaTTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTTCTGCCATCAATGGACAACGCGCCAAc            <  1:3891851/71‑1 (MQ=255)
                                                          caTTGGCATAAATCATTGCCTCTTTGACGACGCCAGTCGCCGTACTCCCGTCAATCGACAGCGCACCaatc           <  1:960083/71‑3 (MQ=255)
                                                           aTTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCa          <  1:2081315/71‑1 (MQ=255)
                                                            ttGGCATAAACCATCGCTTCTTTGATATCGCCAGTTGCCGTGCTGCCATCAATGGACAACGCGCCAACCAg         <  1:1018982/71‑1 (MQ=255)
                                                            ttGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAg         <  1:3657448/71‑1 (MQ=255)
                                                             tGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAg         >  1:2753474/1‑70 (MQ=255)
                                                             tGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAg         >  1:331902/1‑70 (MQ=255)
                                                             tGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAg         >  1:283908/1‑70 (MQ=255)
                                                                 aTAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAAcgc                  <  1:778934/57‑1 (MQ=255)
                                                                  tAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAAcgc                  >  1:2829819/1‑56 (MQ=255)
                                                                  tAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAGTACCg    <  1:1832053/70‑1 (MQ=255)
                                                                   aaaCCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAGTACCGTc  >  1:3243634/1‑71 (MQ=255)
                                                                    aaCCATCGCTTCTTTGATAACGCCAGATGCCGtgc                                     >  1:1411956/1‑35 (MQ=255)
                                                                    aaCCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAGTACCGTc  <  1:62314/70‑1 (MQ=255)
                                                                      |                                                                   
AGTAGCGTAGCCAGGCTACCAATTGGGGTAATTTTCGGTCCCAAATCGCAGCCAATCACATTGGCATAAACCATCGCTTCTTTGATAACGCCAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAGTACCGTC  >  minE/2595444‑2595581

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