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 2,919,246 G→C 22.6% P150P (CCC→CCG)  argI ← ornithine carbamoyltransferase 1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,919,2460GC22.6% 174.9 / 49.0 93P150P (CCC→CCG) argIornithine carbamoyltransferase 1
Reads supporting (aligned to +/- strand):  ref base G (30/41);  new base C (10/11);  total (40/53)
Fisher's exact test for biased strand distribution p-value = 8.03e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01

CATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCAT  >  minE/2919177‑2919316
                                                                     |                                                                      
cATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCgg                                                                       <  1:886526/71‑1 (MQ=255)
cATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCg                                                                        <  1:694927/70‑1 (MQ=255)
    gAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCaa                                                                   <  1:2893689/71‑1 (MQ=255)
    gAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCaa                                                                   <  1:3745365/71‑1 (MQ=255)
    gAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCaa                                                                   <  1:762208/71‑1 (MQ=255)
    gAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCa                                                                    <  1:2583324/70‑1 (MQ=255)
    gAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCa                                                                    <  1:58346/70‑1 (MQ=255)
     aaTTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCaaa                                                                  >  1:3741343/1‑71 (MQ=255)
     aaTTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCaaa                                                                  <  1:3235175/71‑1 (MQ=255)
         gCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCt                                                              >  1:554028/1‑71 (MQ=255)
          cccATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGc                                                                     <  1:3755735/63‑1 (MQ=255)
           ccATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTcc                                                            <  1:3782032/71‑1 (MQ=255)
            cATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCt                                                           >  1:3347436/1‑71 (MQ=255)
             aTGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTg                                                          <  1:1265581/71‑1 (MQ=255)
             aTGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGc                                                               <  1:2935722/66‑1 (MQ=255)
              tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTc                                                             >  1:2627365/1‑67 (MQ=255)
              tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTg                                                          >  1:2860423/1‑70 (MQ=255)
              tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTg                                                          >  1:793078/1‑70 (MQ=255)
               gttgttGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCa                                                        >  1:2923270/1‑71 (MQ=255)
                ttgttgCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCa                                                        <  1:1330796/70‑1 (MQ=255)
                ttgttgCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCa                                                        <  1:2089736/70‑1 (MQ=255)
                ttgttgCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCa                                                        <  1:789498/70‑1 (MQ=255)
                ttgttgCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCAt                                                       >  1:1159080/1‑71 (MQ=255)
                ttgttACGCGCGTCACCTGCATAGACAAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGAAt                                                       >  1:1735195/1‑71 (MQ=255)
                 tgttGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATg                                                      >  1:2304940/1‑71 (MQ=255)
                 tgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCAt                                                       <  1:465540/70‑1 (MQ=255)
                  gttGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATgg                                                     >  1:2865924/1‑71 (MQ=255)
                  gttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATg                                                      <  1:2745274/70‑1 (MQ=255)
                   ttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATgg                                                     <  1:358280/70‑1 (MQ=255)
                   ttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATgg                                                     <  1:1224030/70‑1 (MQ=255)
                   ttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGt                                                    <  1:1745529/71‑1 (MQ=255)
                     gcgcgcaTCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCa                                                                    >  1:3906515/2‑53 (MQ=255)
                     gcgcgcaTCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCa                                                                    >  1:428561/2‑53 (MQ=255)
                     aCGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGt                                                    >  1:291980/1‑69 (MQ=255)
                     aCGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTg                                                   <  1:3118263/70‑1 (MQ=255)
                      cgcgcaTCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGtca                                                  <  1:414890/70‑3 (MQ=255)
                       gcgcgTCACCTGCATAGACAAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTgag                                                 >  1:3389424/1‑70 (MQ=255)
                         gcgTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCa                                                                    <  1:2678815/49‑1 (MQ=255)
                         gcgTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCa                                                                    <  1:124757/49‑1 (MQ=255)
                            tCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATc                                           <  1:984147/71‑1 (MQ=255)
                                cTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGagaaga                                             <  1:1332913/65‑1 (MQ=255)
                                  gCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATgg                                                     <  1:1371044/55‑1 (MQ=255)
                                  gCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcag                                     >  1:2729199/1‑71 (MQ=255)
                                  gCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcag                                     >  1:3375487/1‑71 (MQ=255)
                                  gCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcag                                     >  1:1443836/1‑71 (MQ=255)
                                   cATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcag                                     <  1:2524156/70‑1 (MQ=255)
                                   cATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcag                                     >  1:215778/1‑70 (MQ=255)
                                     tAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcagcag                                  >  1:3820175/1‑71 (MQ=255)
                                     tAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcagcag                                  >  1:1566546/1‑71 (MQ=255)
                                      aGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCagcagc                                 >  1:345191/1‑71 (MQ=255)
                                       gACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCt                                <  1:678766/71‑1 (MQ=255)
                                       gACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCt                                <  1:1845784/71‑1 (MQ=255)
                                       gACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCt                                <  1:488704/71‑1 (MQ=255)
                                       gACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCt                                >  1:2324041/1‑71 (MQ=255)
                                        aCCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCcagca                                   <  1:1536491/67‑1 (MQ=255)
                                         ccAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGc                              <  1:417966/71‑1 (MQ=255)
                                          cAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGagaa                                               >  1:3417191/1‑53 (MQ=255)
                                          cAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCg                             >  1:898756/1‑71 (MQ=255)
                                               tcctttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGa                        <  1:1672665/68‑1 (MQ=255)
                                               tCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGa                        <  1:1495109/71‑1 (MQ=255)
                                                cATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGAt                       >  1:3709877/1‑71 (MQ=255)
                                                 atctCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTCGGGTg                      <  1:2544862/68‑1 (MQ=255)
                                                 aTTTCGTTGAACGCTTTGCCTGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATg                      <  1:1517941/71‑1 (MQ=255)
                                                  tttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATg                                                      <  1:3224539/38‑1 (MQ=255)
                                                  tttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGTGAAGATCCGCCAGCAGCTGCGTGGGATgg                     <  1:2800/71‑1 (MQ=255)
                                                  tttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg                     <  1:291035/71‑1 (MQ=255)
                                                  tttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg                     <  1:1516533/71‑1 (MQ=255)
                                                  tttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGAATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg                     <  1:2940543/71‑1 (MQ=255)
                                                   ttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCa                                                        >  1:2885270/1‑35 (MQ=255)
                                                     cGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAAc                  >  1:3500525/1‑71 (MQ=255)
                                                     cGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAAc                  >  1:464517/1‑71 (MQ=255)
                                                      gTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTCGGGTGGaa                   <  1:3462692/69‑1 (MQ=255)
                                                       ttGAACGCTTTGCCGGGCAAATGGTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg                     >  1:16463/1‑66 (MQ=255)
                                                       ttGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTc                <  1:1014133/71‑1 (MQ=255)
                                                       ttGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTc                <  1:1671315/71‑1 (MQ=255)
                                                        tGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGTATGGAACTCa               >  1:242989/1‑71 (MQ=255)
                                                        tGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTc                <  1:856089/70‑1 (MQ=255)
                                                        tGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCa               >  1:632586/1‑71 (MQ=255)
                                                         gAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATTGAACTCa               <  1:2928175/70‑1 (MQ=255)
                                                          aaCGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg                     <  1:3392923/63‑1 (MQ=255)
                                                          aaCGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCAt              <  1:935183/70‑1 (MQ=255)
                                                          aaCGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTCGGGTGGAACTcgt              <  1:3478967/70‑3 (MQ=255)
                                                          aaCGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTCGGGTGGAACTcgt              <  1:1989517/70‑3 (MQ=255)
                                                           aCGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTgg                              >  1:705940/1‑52 (MQ=255)
                                                            cGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGAt                                            >  1:1315962/1‑38 (MQ=255)
                                                             gCTTTGCCGGGCAATTGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGt          <  1:2727425/71‑1 (MQ=255)
                                                             gCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGt          <  1:2405156/71‑1 (MQ=255)
                                                             gCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGt          <  1:56103/71‑1 (MQ=255)
                                                               tttGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGt          >  1:25113/1‑69 (MQ=255)
                                                               cttGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTCGGGTCGAACTCGTTGGt          >  1:260038/2‑69 (MQ=255)
                                                                ttGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAg       >  1:1152492/1‑71 (MQ=255)
                                                                 tGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAgg      >  1:983456/1‑71 (MQ=255)
                                                                  gCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGc     >  1:1081914/1‑71 (MQ=255)
                                                                  gCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGc     >  1:356765/1‑71 (MQ=255)
                                                                    cGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGcc    <  1:1194635/70‑1 (MQ=255)
                                                                     gggCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCAt  <  1:2248350/71‑1 (MQ=255)
                                                                     |                                                                      
CATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCAT  >  minE/2919177‑2919316

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