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 2,569,866 A→G 18.3% T46A (ACG→GCG) ‡ yibI → predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,569,8660AG18.3% 177.1 / 32.2 82T46A (ACG→GCG) ‡yibIpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base A (41/26);  new base G (8/7);  total (49/33)
Fisher's exact test for biased strand distribution p-value = 5.76e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.34e-01

GCGATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTA  >  minE/2569800‑2569936
                                                                  |                                                                      
gcgATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcggc                                                                    >  1:3639745/1‑71 (MQ=255)
 cgATACATGACATCCCTTATCTGATTGCCAAAAAGCGCACCCATCCCCATGCCGACGCTATTCATAcggag                                                                   >  1:916638/1‑69 (MQ=255)
 cgATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcggcg                                                                   <  1:1953051/71‑1 (MQ=255)
      cATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATa                                                                        >  1:990938/1‑61 (MQ=255)
      cATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATa                                                                        >  1:1921031/1‑61 (MQ=255)
      cATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCt                                                               <  1:124014/70‑1 (MQ=255)
         gACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGt                                                           >  1:2138577/1‑71 (MQ=255)
         gACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGt                                                           >  1:1269066/1‑71 (MQ=255)
           cATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGt                                                           >  1:3620947/1‑69 (MQ=255)
           cATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGa                                                         <  1:3176992/71‑1 (MQ=255)
           cATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGa                                                         <  1:1503116/71‑1 (MQ=255)
            aTCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAg                                                        >  1:2305542/1‑71 (MQ=255)
             tCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGc                                                       <  1:149024/71‑1 (MQ=255)
              cccTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGcc                                                      >  1:842159/1‑71 (MQ=255)
              cccTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGcc                                                      >  1:3491670/1‑71 (MQ=255)
              cccTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGcc                                                      >  1:843393/1‑71 (MQ=255)
               ccTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCt                                                     <  1:1558395/71‑1 (MQ=255)
                  taccTGATTGCCAAAAAACGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCtttt                                                  >  1:111463/4‑71 (MQ=255)
                   aTCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATa                                                                        >  1:2613278/1‑48 (MQ=255)
                      tGATTGCCAAAAAACGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTAcg                                              >  1:3510562/1‑70 (MQ=255)
                        aTTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTa                                                <  1:971577/67‑1 (MQ=255)
                        aTTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActgt                                            >  1:2019885/1‑69 (MQ=255)
                        aTTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActct                                            >  1:3013801/1‑71 (MQ=255)
                         tttccAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                           >  1:3710796/4‑71 (MQ=255)
                         ttGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcgg                                                                     >  1:428812/1‑45 (MQ=255)
                         ttGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcgg                                                                     >  1:24152/1‑45 (MQ=255)
                          tGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                           <  1:524203/70‑1 (MQ=255)
                            ccAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGc                                          <  1:3466348/69‑1 (MQ=255)
                            ccAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCAt                                        >  1:3241722/1‑71 (MQ=255)
                              aaaaaaCGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCtttt                                                  >  1:2014367/1‑59 (MQ=255)
                              aaaaaaCGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCtttt                                                  >  1:3375704/1‑59 (MQ=255)
                              aaaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                                      >  1:564705/1‑71 (MQ=255)
                               aaaaGCGCAACCATCCCCATGCCGACGCTATTCATAcggc                                                                    <  1:1183526/40‑1 (MQ=255)
                               aaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                                      >  1:937618/1‑70 (MQ=255)
                                aaaaCGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCtttt                                                  >  1:2508762/1‑57 (MQ=255)
                                aaaGCGCAACCATCCCCATGCCGACGCTATTCATAcgg                                                                     >  1:2275429/1‑38 (MQ=255)
                                aaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTa                                    >  1:3159904/1‑71 (MQ=255)
                                 aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTa                                    >  1:2022477/1‑70 (MQ=255)
                                 aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                   <  1:890090/71‑1 (MQ=255)
                                  aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                  <  1:985524/71‑1 (MQ=255)
                                  aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                  <  1:1049032/71‑1 (MQ=255)
                                  aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                  >  1:3358137/1‑71 (MQ=255)
                                   gcgcAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGc                                                       >  1:2446425/1‑49 (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                        <  1:2416691/71‑1 (MQ=255)
                                            tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc                        <  1:1351690/71‑1 (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)
                                                     cGACGCTATTCATACGGCGGGCTGGGTGAGCCTGt                                                   >  1:377072/1‑35 (MQ=255)
                                                      gACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtgt                     <  1:2100924/64‑1 (MQ=255)
                                                      gACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTg              <  1:2600880/71‑1 (MQ=255)
                                                      gACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTg              <  1:611473/71‑1 (MQ=255)
                                                      gACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTg              <  1:3418814/71‑1 (MQ=255)
                                                       aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                           >  1:2800461/1‑41 (MQ=255)
                                                       aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                           >  1:3411234/1‑41 (MQ=255)
                                                       aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGc                                          <  1:1838883/42‑1 (MQ=255)
                                                       aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGc                                          <  1:2571869/42‑1 (MQ=255)
                                                       aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTgg             >  1:1384040/1‑71 (MQ=255)
                                                         gCTATTCATACGGCGGGCTGGGTGAGCCTGTTTTCTCTGCATGTTATCt                                 >  1:172294/1‑49 (MQ=255)
                                                           tATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGAt                 >  1:3461707/1‑63 (MQ=255)
                                                           tATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGAt                 >  1:3457178/1‑63 (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    <  1:381442/71‑1 (MQ=255)
                                                                aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctc    >  1:3766557/1‑71 (MQ=255)
                                                                 tACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctct   <  1:3087948/71‑1 (MQ=255)
                                                                  aCGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctct   >  1:3399315/1‑70 (MQ=255)
                                                                  aCGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTa  >  1:2907231/1‑71 (MQ=255)
                                                                  |                                                                      
GCGATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTA  >  minE/2569800‑2569936

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