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 2,569,892 T→G 18.7% T54T (ACT→ACG)  yibI → predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,569,8920TG18.7% 158.5 / 45.3 91T54T (ACT→ACG) yibIpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base T (39/35);  new base G (7/10);  total (46/45)
Fisher's exact test for biased strand distribution p-value = 4.31e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTGGGGTATG  >  minE/2569824‑2569961
                                                                    |                                                                     
aTTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActgt                                                                     >  1:2019885/1‑69 (MQ=255)
aTTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActct                                                                     >  1:3013801/1‑71 (MQ=255)
 tttccAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                                                    >  1:3710796/4‑71 (MQ=255)
  tGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                                                    <  1:524203/70‑1 (MQ=255)
    ccAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGc                                                                   <  1:3466348/69‑1 (MQ=255)
    ccAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCAt                                                                 >  1:3241722/1‑71 (MQ=255)
      aaaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                                                               >  1:564705/1‑71 (MQ=255)
       aaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                                                               >  1:937618/1‑70 (MQ=255)
        aaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTa                                                             >  1:3159904/1‑71 (MQ=255)
         aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTa                                                             >  1:2022477/1‑70 (MQ=255)
         aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                                            <  1:890090/71‑1 (MQ=255)
          aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                                           <  1:1049032/71‑1 (MQ=255)
          aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                                           <  1:985524/71‑1 (MQ=255)
          aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                                           >  1:3358137/1‑71 (MQ=255)
             gcAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTg                                                         <  1:2839573/70‑1 (MQ=255)
              cAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGc                                                       <  1:1188419/71‑1 (MQ=255)
                atcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGcc                                                      <  1:425152/68‑1 (MQ=255)
                aCCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCg                                                     >  1:188367/1‑71 (MQ=255)
                 ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                                                    >  1:415982/1‑71 (MQ=255)
                  cATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGtt                                                   >  1:948653/1‑71 (MQ=255)
                   aTCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGttt                                                  >  1:2523582/1‑71 (MQ=255)
                   aTCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGtt                                                   <  1:1663610/70‑1 (MQ=255)
                   aTCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATATGGCCGtt                                                   <  1:2218898/70‑1 (MQ=255)
                    tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc                                                 <  1:1351690/71‑1 (MQ=255)
                    tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc                                                 <  1:2416691/71‑1 (MQ=255)
                       ccATGCCGACGCTATTAATACGGCGGGCTGGGTGAGCCTGCTTACTCTGCATGtt                                                              <  1:2461933/55‑1 (MQ=255)
                        cATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtgtg                                             <  1:1107913/71‑1 (MQ=255)
                        cATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCt                                                          >  1:1243315/1‑58 (MQ=255)
                         aTGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                                            >  1:1085642/1‑55 (MQ=255)
                         aTGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtgtg                                             >  1:3549510/1‑70 (MQ=255)
                          tGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActct                                                                     >  1:3891268/1‑45 (MQ=255)
                          tGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                                                    >  1:1016108/1‑62 (MQ=255)
                          tGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTgg                                            <  1:3709517/70‑1 (MQ=255)
                              gACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtgt                                              <  1:2100924/64‑1 (MQ=255)
                              gACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTg                                       <  1:611473/71‑1 (MQ=255)
                              gACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTg                                       <  1:3418814/71‑1 (MQ=255)
                              gACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTg                                       <  1:2600880/71‑1 (MQ=255)
                               aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                                                    >  1:3411234/1‑41 (MQ=255)
                               aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                                                    >  1:2800461/1‑41 (MQ=255)
                               aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGc                                                                   <  1:2571869/42‑1 (MQ=255)
                               aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGc                                                                   <  1:1838883/42‑1 (MQ=255)
                               aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTgg                                      >  1:1384040/1‑71 (MQ=255)
                                 gCTATTCATACGGCGGGCTGGGTGAGCCTGTTTTCTCTGCATGTTATCt                                                          >  1:172294/1‑49 (MQ=255)
                                   tATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGAt                                          >  1:3457178/1‑63 (MQ=255)
                                   tATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGAt                                          >  1:3461707/1‑63 (MQ=255)
                                    aTTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGa                                  >  1:3498529/1‑70 (MQ=255)
                                     ttCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACg                                >  1:1590569/1‑71 (MQ=255)
                                     ttCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACg                                >  1:3337287/1‑71 (MQ=255)
                                     ttCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATCTTAt                                                            >  1:3624033/1‑43 (MQ=255)
                                      tCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGcc                                                      <  1:137562/48‑1 (MQ=255)
                                       cATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                                            >  1:3509457/1‑41 (MQ=255)
                                        aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGc                                    <  1:3270038/64‑1 (MQ=255)
                                        aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctc                             >  1:3766557/1‑71 (MQ=255)
                                        aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctc                             <  1:381442/71‑1 (MQ=255)
                                         tACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctct                            <  1:3087948/71‑1 (MQ=255)
                                          aCGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctct                            >  1:3399315/1‑70 (MQ=255)
                                          aCGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTa                           >  1:2907231/1‑71 (MQ=255)
                                           cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctc                             >  1:1410986/1‑68 (MQ=255)
                                           cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctc                             >  1:840233/1‑68 (MQ=255)
                                           cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctc                             >  1:3786883/1‑68 (MQ=255)
                                            ggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                                            >  1:186579/1‑36 (MQ=255)
                                             gcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTgg                                            >  1:3936005/1‑51 (MQ=255)
                                             gcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCa                        <  1:2277035/71‑1 (MQ=255)
                                              cggGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                                           <  1:783882/35‑1 (MQ=255)
                                               gggCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtgt                                              <  1:3629224/47‑1 (MQ=255)
                                                ggCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAAcc                     <  1:1521807/71‑1 (MQ=255)
                                                 gttGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTGGGCCACGCTTTa                           >  1:1399135/3‑64 (MQ=255)
                                                   tGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTgg                                            >  1:2417065/1‑45 (MQ=255)
                                                   tGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTGGGCCACGCTTTa                           >  1:935435/1‑62 (MQ=255)
                                                   tGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCg                    >  1:2309242/1‑69 (MQ=255)
                                                    gggTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                                                <  1:3578078/40‑1 (MQ=255)
                                                    gggTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                                                <  1:3725711/40‑1 (MQ=255)
                                                    gggTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                                                <  1:1408607/40‑1 (MQ=255)
                                                    gggTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                                                <  1:2314624/40‑1 (MQ=255)
                                                    gggTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTg                                       <  1:727625/49‑1 (MQ=255)
                                                     ggTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAg                 <  1:1096122/70‑1 (MQ=255)
                                                     ggTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGc                >  1:619740/1‑71 (MQ=255)
                                                      gTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTGGGCCACGCTTTACCGCCCGGAGCg               <  1:791423/71‑1 (MQ=255)
                                                       tGAGTCTTTTTACGTTACATGTTATCTGGCCGttt                                                  <  1:3703128/35‑1 (MQ=16)
                                                       tGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtg                                               <  1:3322792/38‑1 (MQ=255)
                                                       tGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTAt                          >  1:1754319/1‑59 (MQ=255)
                                                       tGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGt              >  1:767200/1‑71 (MQ=255)
                                                        gAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtgtg                                             >  1:2382118/1‑39 (MQ=255)
                                                        gAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGa                                           <  1:3575894/41‑1 (MQ=255)
                                                         aGCCTGTTTACTCTGCTTGTTATCTGGCCGTTTCt                                                <  1:2753530/35‑1 (MQ=255)
                                                         aGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTgg            >  1:3481944/1‑71 (MQ=255)
                                                         aGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTgg            >  1:2586938/1‑71 (MQ=255)
                                                            cTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTAt                          >  1:2444902/1‑54 (MQ=255)
                                                              gTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTa                           >  1:2757702/1‑51 (MQ=255)
                                                               tttACTCTGCATGTTATCTGGCCGTTTCTTTGGATCTGGGCGACGCTCTATCAACCGGa                  <  1:2788372/59‑1 (MQ=255)
                                                               tttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCaa                       <  1:3919277/54‑1 (MQ=255)
                                                               tttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTgg        <  1:2841122/69‑1 (MQ=255)
                                                               tttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGCCGACGCTCTATCAACCGGAGCGTGGCTgg        <  1:3581725/69‑1 (MQ=255)
                                                                  aCTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTGGGGTa    <  1:3701735/70‑1 (MQ=255)
                                                                   ctctGCATGTTATCTGGCCTTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTGGGGTAt   <  1:1233029/70‑1 (MQ=255)
                                                                    tctGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctc                             <  1:618787/43‑1 (MQ=255)
                                                                    tctGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCa                        <  1:1926712/48‑1 (MQ=255)
                                                                    tctGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTggg       <  1:1138669/65‑1 (MQ=255)
                                                                    tctGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTGGGGTATg  >  1:3079914/1‑70 (MQ=255)
                                                                    |                                                                     
ATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTGGGGTATG  >  minE/2569824‑2569961

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