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 2,595,602 A→T 21.0% S332S (TCT→TCA)  arsB ← arsenite/antimonite transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,595,6020AT21.0% 96.9 / 23.0 48S332S (TCT→TCA) arsBarsenite/antimonite transporter
Reads supporting (aligned to +/- strand):  ref base A (12/25);  new base T (3/7);  total (15/33)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.02e-01

CAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCCACAGGCCGTTATCCGCCAGCACGTTGA  >  minE/2595535‑2595672
                                                                   |                                                                      
cAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATagaa                                                                        >  1:1563804/1‑68 (MQ=255)
 aGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATagaaga                                                                      >  1:1388102/1‑69 (MQ=255)
 aGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAagaga                                                                    <  1:3061942/71‑1 (MQ=255)
    tGCCGTGCTGCCATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGa                                                                 <  1:50266/71‑1 (MQ=255)
      ccGTGCTGCCATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGaa                                                                <  1:3224139/70‑1 (MQ=255)
       cGTACTCCCGTCAATCGACAGCGCACCAATCAGCACCGTCGGCATATTGTTCATCACTGATGAGAGaaatg                                                              <  1:201724/71‑3 (MQ=255)
       cGTACTCCCGTCAATCGACAGCGCACCAATCAGCACCGTCGGCATATTGTTCATCACTGATGAGAGaaatg                                                              <  1:2904511/71‑3 (MQ=255)
              ccATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTg                                                         <  1:2708672/69‑1 (MQ=255)
              ccATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTg                                                         <  1:1184608/69‑1 (MQ=255)
              ccATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTg                                                         <  1:1307564/69‑1 (MQ=255)
              ccATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTg                                                         <  1:1413277/69‑1 (MQ=255)
              ccATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGa                                                        <  1:1579238/70‑1 (MQ=255)
               cATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAg                                                       >  1:3614976/1‑70 (MQ=255)
                aTCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAgg                                                      >  1:2517067/1‑70 (MQ=255)
                 tCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGaa                                                    <  1:2784911/71‑1 (MQ=255)
                 tCAATCGACAGCGCACCAATCAGCACCGTCGGCATATTGTTCATCACTGATGAGAGaaa                                                                >  1:493222/1‑59 (MQ=255)
                 tCAATCGACAGCGAACCAATCAGCACCGTCGGCATATTATTCATCACTGATGAGAGAAATGc                                                             >  1:3547802/1‑62 (MQ=255)
                  cAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGa                                                        >  1:454727/1‑66 (MQ=255)
                  cAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAAt                                                   >  1:1365583/1‑71 (MQ=255)
                   aaTGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAagaga                                                                    >  1:2228250/1‑53 (MQ=255)
                   aaTGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATc                                                  >  1:2062411/1‑71 (MQ=255)
                   aaTCGACAGCGCACCAATCAGCACCGTCGGCATATTGTTCATCACTGATGAGAGAAATGCCGTCAAGaag                                                   <  1:1858041/70‑2 (MQ=255)
                   aaTCGACAGCGCACCAATCAGCACCGTCGGCATATTATTCATCACTGACGAGAGAAATGCCGTCAAGaagc                                                  <  1:1880062/71‑3 (MQ=255)
                    aTGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATcc                                                 >  1:2230069/1‑71 (MQ=255)
                     tGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATagaaga                                                                      <  1:2067647/49‑1 (MQ=255)
                     tGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAgg                                                                  <  1:1229662/53‑1 (MQ=255)
                     tGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCg                                                <  1:3703989/71‑1 (MQ=255)
                     tGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCg                                                >  1:3476805/1‑71 (MQ=255)
                       gACAGCGCACCAATCAGCACCGTCGGCATATTATTCATCACTGATGAGAGAAATGCCGTCAAGAAGCCGGt                                              <  1:1177483/71‑1 (MQ=255)
                       gACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGTCGGTGAGGAATCCGGt                                              <  1:2611145/71‑1 (MQ=255)
                       gACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCgg                                               <  1:817798/70‑1 (MQ=255)
                        aCAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATagaaga                                                                      <  1:1834568/46‑1 (MQ=255)
                           gcgcaCCAATCAGCACCGTCGGCATATTATTCATCACTGATGAGAGAAATGCCGTCAAGAAGCCGGTGCCg                                          <  1:2432020/70‑1 (MQ=255)
                                 cAATCAGCACCGTCGGCATATTATTCATCACTGAtgagaga                                                                  <  1:1349700/41‑2 (MQ=255)
                                 cAACCAGTACCGTCGGCATATTGTTCATAATagaaga                                                                      >  1:1452556/1‑37 (MQ=255)
                                 cAACCAGTACCGTCGGCATATTGTTCATAATagaaga                                                                      >  1:3394895/1‑37 (MQ=255)
                                  aaCCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAg                                                       >  1:2587318/1‑51 (MQ=255)
                                  aaCCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAg                                                       >  1:773494/1‑51 (MQ=255)
                                   aCCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTcgc                                  <  1:317021/71‑1 (MQ=255)
                                    tcAGCACCGTCGGCATATTATTCATCACTGATGAGAGAAATGCCGTCAAGAAGCCGGTGCCGAACGTcgat                                 >  1:1449819/2‑69 (MQ=255)
                                    ccAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTcgcg                                 >  1:185886/1‑71 (MQ=255)
                                      agcaCCGTCGGCATATTATTCATCACTGATGAGAGAAATGCCGTCAAGAAGCCGGTGCCGAACGTCGCTGc                               <  1:3215003/68‑1 (MQ=255)
                                         aCCGTCGGCATATTGTTCATCACTGATGAGAGAAATGCCGTCAAGAAGCCGGTGCCGAACGTCGCTGCCca                            <  1:2235688/71‑1 (MQ=255)
                                           cGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCcac                           <  1:1424282/70‑1 (MQ=255)
                                            gTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCCACAg                         <  1:3928906/71‑1 (MQ=255)
                                             tCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGa                                         <  1:249413/54‑1 (MQ=255)
                                             tCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCcaca                          <  1:1126770/69‑1 (MQ=255)
                                               ggCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATc                                                  >  1:536063/1‑43 (MQ=255)
                                               ggCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCCACAGGcc                      <  1:2856962/71‑1 (MQ=255)
                                                gCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGTGcc                                           <  1:3830264/49‑1 (MQ=255)
                                                  atatTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTcgcg                                 <  1:3333826/57‑1 (MQ=255)
                                                   tatTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGt                                              <  1:3353065/43‑1 (MQ=255)
                                                       gTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCCACAGGCCGTTATcc               <  1:1177307/70‑1 (MQ=255)
                                                              ataGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGccccc                           >  1:810155/1‑49 (MQ=255)
                                                               taGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCCACAGGCCGTTATCCGCCAGCACg      <  1:3353876/71‑1 (MQ=255)
                                                               taGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCCACAGGCCGTTATCCGCCAGCACg      <  1:3340122/71‑1 (MQ=255)
                                                               taGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCCACAGGCCGTTATCCGCCAGCACg      <  1:1827776/71‑1 (MQ=255)
                                                                 gaagaGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCCACAGGCCGTTATCCGCCAGCACg      <  1:1009229/69‑1 (MQ=255)
                                                                   agagagGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCCACAGGCCGTTATCCGCCAGCACGTTg   <  1:1623860/70‑1 (MQ=255)
                                                                   agagagGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCCACAGGCCGTTATCCGCCAGCACGTTGa  <  1:1726669/71‑1 (MQ=255)
                                                                   |                                                                      
CAGATGCCGTGCTGCCATCAATGGACAACGCGCCAACCAGTACCGTCGGCATATTGTTCATAATAGAAGAGAGGAAGGCGGTGAGGAATCCGGTGCCGAGCGTCGCGGCCCACAGGCCGTTATCCGCCAGCACGTTGA  >  minE/2595535‑2595672

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