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
A5 F17 I0 R2 162 60.6 4616657 98.5% 4547407 62.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA W3110S.gb 2,082,018 A→G 13.1% I237I (ATT→ATC)  yeeA ← conserved inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb2,082,0180AG13.1% 150.7 / 15.9 61I237I (ATT→ATC) yeeAconserved inner membrane protein
Reads supporting (aligned to +/- strand):  ref base A (28/25);  new base G (4/4);  total (32/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.18e-01

GAAATGGCTGGGGCGCGTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGAATACGGGTTTCTTTGCTGGCGGGCGCAATCAGTCC  >  W3110S.gb/2081949‑2082086
                                                                     |                                                                    
gAAATGGCTGGGGCGCGTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTaa                                                                     <  1:4092409/71‑1 (MQ=255)
 aaaTGGCTGGGGCGCGTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTTCGGTTGAt                                                                    <  1:2062111/71‑1 (MQ=255)
 aaaTGGCTGGGGCGCGTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTaa                                                                     <  1:931821/70‑1 (MQ=255)
 aaaTGGCTGGGGCGCGTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTGAt                                                                    >  1:1459279/1‑71 (MQ=255)
  aaTGGCTGGGGCGCGTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAAt                                                                    <  1:73304/70‑1 (MQ=255)
  aaTGGCTGGGGCGCGTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATg                                                                   >  1:2034656/1‑71 (MQ=255)
  aaTGGCTGGGGCGCGTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATg                                                                   <  1:3889331/71‑1 (MQ=255)
  aaTGGCTGGGGCGCGTGGCACAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATg                                                                   >  1:4161990/1‑71 (MQ=255)
      gCTGGGGCGCGTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTc                                                                <  1:3216286/70‑1 (MQ=255)
          gggCGCGTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTGATGGTCTg                                                              >  1:1972458/1‑68 (MQ=255)
            gcgcGTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTGATGGTCTGGATAc                                                         <  1:1019659/71‑1 (MQ=255)
             cgcgTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATAcc                                                        >  1:2836883/1‑71 (MQ=255)
                gTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGa                                                            >  1:3620388/1‑64 (MQ=255)
                gTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTc                                                     <  1:982960/71‑1 (MQ=255)
                   gCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCata                                                  >  1:3430538/1‑71 (MQ=255)
                    cccAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCa                                                    <  1:664818/68‑1 (MQ=255)
                     ccAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGa                                                            >  1:3284340/1‑59 (MQ=255)
                     ccAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGa                                                            >  1:330316/1‑59 (MQ=255)
                     ccAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCatata                                                >  1:629420/1‑71 (MQ=255)
                     ccAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCa                                                    <  1:152467/67‑1 (MQ=255)
                      cAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTgg                                                             <  1:1198625/57‑1 (MQ=255)
                      cAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATTCCTTCatatat                                               >  1:4556154/1‑71 (MQ=255)
                      cAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCtt                                                      >  1:3266335/1‑64 (MQ=255)
                       aGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGAt                                                           <  1:1284600/58‑1 (MQ=255)
                       aGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGAt                                                           <  1:2174309/58‑1 (MQ=255)
                       aGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGAt                                                           <  1:2566381/58‑1 (MQ=255)
                        gTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCATATATc                                              >  1:1441664/1‑70 (MQ=255)
                         tATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTaa                                                                     <  1:2056304/46‑1 (MQ=255)
                          aTGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTgg                                                             >  1:215555/1‑53 (MQ=255)
                           tGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGAtt                                          >  1:3781423/1‑71 (MQ=255)
                           tGCATTGATTTGCAACTCCAGCATACAAACCAGAGTGCGGTTAATGGTCTGGATACCTGCATATATAGAtt                                          >  1:172823/1‑71 (MQ=255)
                            gCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGAttt                                         >  1:1433714/1‑71 (MQ=255)
                            gCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGAtt                                          <  1:2045536/70‑1 (MQ=255)
                             cATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTGATGGTCTGGATACCTTCATATATCGAttt                                         <  1:1095964/70‑1 (MQ=255)
                             cATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGAttt                                         <  1:1133528/70‑1 (MQ=255)
                             cATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATCGTCTGGATACCTTCATATATCGAttt                                         <  1:2913238/70‑1 (MQ=255)
                               ttGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTa                                                                      >  1:2856399/1‑39 (MQ=255)
                                 gATTTGCAACTCCAGCATACAAACCAGATTGCGGTTGATGGTCTgg                                                             >  1:304258/1‑46 (MQ=255)
                                 gATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGaa                                    >  1:4407654/1‑71 (MQ=255)
                                 gATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGaa                                    >  1:2302155/1‑71 (MQ=255)
                                 gATTTGCAACTCCAGCATACAAACAAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGaa                                    >  1:3949376/1‑71 (MQ=255)
                                   tttGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCata                                                  >  1:1804578/1‑55 (MQ=255)
                                   tttGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGAATa                                  <  1:1341747/71‑1 (MQ=255)
                                        aaCTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCatatat                                               <  1:1671774/53‑1 (MQ=255)
                                          cTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCt                                                       <  1:1805127/43‑1 (MQ=255)
                                            ccAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCata                                                  >  1:104047/1‑46 (MQ=255)
                                                cATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGaa                                    <  1:479003/56‑1 (MQ=255)
                                                  tACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGAATa                                  >  1:4587987/1‑56 (MQ=255)
                                                   aCAAACCAGATTGCGGTTAATGGTCTGGATACCTTCata                                                  >  1:151084/1‑39 (MQ=255)
                                                    cAAACCAGATTGCGGTTGATGGTCTGGATACCTTCATATATCGAtttt                                        >  1:104653/1‑48 (MQ=255)
                                                    cAAACCAGATTGCGGTTAATGGTCTGGATACCTTCatata                                                <  1:1507647/40‑1 (MQ=255)
                                                     aaaCCAGATTGCGGTTGATGGTCTGGATACCTTCATATATCGATTTTGGAATACGGGTTTCtt                        <  1:3136943/63‑1 (MQ=255)
                                                        ccAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGAATACGGGTTTCTTTGCTggcgggc             <  1:4082437/71‑1 (MQ=255)
                                                          aGATTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGAATACGGGTTTCTTTGCTGGCGGgcgc           <  1:363508/71‑1 (MQ=255)
                                                            aTTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGAATa                                  >  1:3301005/1‑46 (MQ=255)
                                                            aTTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGAATa                                  >  1:2507268/1‑46 (MQ=255)
                                                            aTTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGAATACGGGTTTCTTTGCTGGCGGGCGCaa         >  1:2594682/1‑71 (MQ=255)
                                                            aTTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGAATACGGGTTTCTTTGCTGGCGGGCGCaa         <  1:3980482/71‑1 (MQ=255)
                                                             ttGCGGTTAATGGTCTGGATACCTTCATATATCGAttt                                         >  1:1666100/1‑38 (MQ=255)
                                                             ttGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGAATACGGGTTTCTTTGCTGGCGGGCGCAAt        <  1:669061/71‑1 (MQ=255)
                                                              tGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGaa                                    >  1:899416/1‑42 (MQ=255)
                                                                   ttAATGGTCTGGATACCTTCATATATCGATTTTgg                                      <  1:1175419/35‑1 (MQ=255)
                                                                   ttAATGGTCTGGATACCTTCATATATCGATTTTGGAATACGGGTTTCTTTGCTGGCGGGCGCAATCAGTcc  <  1:4293968/71‑1 (MQ=255)
                                                                   ttAATGGTCTGGATACCTTCATATATCGATTTTGGAATACGGGTTTCTTTGCTGGCGGGCGCAATCAGTcc  <  1:3427267/71‑1 (MQ=255)
                                                                    tAATGGTCTGGATACCTTCATATATCGATTTTGGaa                                    >  1:4473756/1‑36 (MQ=255)
                                                                     aaTGGTCTGGATACCTTCATATATCGATTTTGGAATACGGGTTTCTTTGCTggc                 <  1:711977/54‑1 (MQ=255)
                                                                     |                                                                    
GAAATGGCTGGGGCGCGTGGCCCAGTATGCATTGATTTGCAACTCCAGCATACAAACCAGATTGCGGTTAATGGTCTGGATACCTTCATATATCGATTTTGGAATACGGGTTTCTTTGCTGGCGGGCGCAATCAGTCC  >  W3110S.gb/2081949‑2082086

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