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
A1 F8 I0 R1 311 50.1 4085234 95.9% 3917739 60.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA W3110S.gb 2,257,455 C→T 10.2% G9R (GGA→AGA)  yeiJ ← predicted nucleoside transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb2,257,4550CT10.2% 321.0 / 20.1 108G9R (GGA→AGA) yeiJpredicted nucleoside transporter
Reads supporting (aligned to +/- strand):  ref base C (42/54);  new base T (5/6);  total (48/60)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01

Only 100 of 110 total aligned reads displayed.

ACGGTACGCAGGCTGATCTTCTTCTTGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCTTTCTGCCCA  >  W3110S.gb/2257385‑2257524
                                                                      |                                                                     
aCGGTACGCAGGCTGATCTTCTTCTTGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTcc                                                                       <  1:2059712/71‑1 (MQ=255)
      cGCAGGCTGATCTTCTTCTTGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCTCAGaa                                                                  <  1:3509983/70‑1 (MQ=255)
            cTGATCTTCTTCTTGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCTCAGAACACTtct                                                           <  1:3565190/71‑1 (MQ=255)
            cTGATCTTCTTCTTGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTtct                                                           <  1:156936/71‑1 (MQ=255)
             tGATCTTCTTCTTGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTtct                                                           >  1:2188691/1‑70 (MQ=255)
               aTCTTCTTCTTGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAacac                                                               <  1:3261246/64‑1 (MQ=255)
               aTCTTCTTCTTGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAacac                                                               <  1:3125751/64‑1 (MQ=255)
               aTCTTCTTCTTGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAacac                                                               <  1:489733/64‑1 (MQ=255)
                 cttcttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAacac                                                               <  1:311547/62‑1 (MQ=255)
                 cttcttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAacac                                                               <  1:619141/62‑1 (MQ=255)
                  ttcttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCCTTCCCAGAACACTTCTCATGa                                                      >  1:1376905/1‑70 (MQ=255)
                  ttcttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAg                                                                    <  1:2193895/56‑1 (MQ=255)
                  ttcttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGaa                                                                  <  1:366594/58‑1 (MQ=255)
                  ttcttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGaa                                                                  <  1:2200863/58‑1 (MQ=255)
                  ttcttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGaa                                                                  <  1:63978/58‑1 (MQ=255)
                  ttcttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCa                                                         >  1:2507831/1‑67 (MQ=255)
                  ttcttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCa                                                         >  1:1911560/1‑67 (MQ=255)
                  ttcttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCa                                                         >  1:3191328/1‑67 (MQ=255)
                  ttcttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGa                                                      >  1:163955/1‑70 (MQ=255)
                    cttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCAt                                                        <  1:374356/66‑1 (MQ=255)
                    cttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACAt                                                   >  1:727116/1‑71 (MQ=255)
                     ttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGa                                                      >  1:2499807/1‑67 (MQ=255)
                     ttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGa                                                      >  1:3829115/1‑67 (MQ=255)
                     ttcttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCACAGAACACTTCTCATGa                                                      >  1:3712275/1‑67 (MQ=255)
                       cttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATc                                                  <  1:3214471/69‑1 (MQ=255)
                       cttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATc                                                  <  1:1846967/69‑1 (MQ=255)
                       cttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATc                                                  <  1:4056654/69‑1 (MQ=255)
                       cttGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATc                                                  <  1:3505605/69‑1 (MQ=255)
                       cttGTTTACTGACAGTAAAAACCCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCa                                                >  1:3092092/1‑71 (MQ=255)
                          gTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCa                                                <  1:3127627/68‑1 (MQ=255)
                          gTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAg                                             >  1:4011574/1‑71 (MQ=255)
                          gTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAg                                             >  1:2754743/1‑71 (MQ=255)
                          gTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAg                                             >  1:741578/1‑71 (MQ=255)
                               cTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGAt                                         <  1:978167/70‑1 (MQ=255)
                               cTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGAt                                         <  1:746810/70‑1 (MQ=255)
                                 gACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGAt                                         <  1:3378073/68‑1 (MQ=255)
                                  aCAGTAAAAACGCAATCGTCAGCAATACCACCATTCTCAGAACACTTCTCATGACATCCa                                                <  1:1185995/60‑1 (MQ=255)
                                  aCAGTAAAAACGCAATCGTCAGCAATACCACCATTCTCAGAACACTTCTCATGACATCCa                                                <  1:643626/60‑1 (MQ=255)
                                  aCAGTAAAAACGCAATCGTCAGCAATACCACCATTCTCAGAACACTTCTCATGACATCCa                                                <  1:561433/60‑1 (MQ=255)
                                  aCAGTAAAAACGCAATCGTCAGCAATACCACCATTCTCAGAACACTTCTCATGACATCCATAGTGATTAt                                      >  1:1168228/1‑70 (MQ=255)
                                    aGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGaa                                                                  >  1:3461793/1‑40 (MQ=255)
                                     gTAAAAACGCAATCGTCAGCAATACCACCATTCCCAg                                                                    <  1:2067656/37‑1 (MQ=255)
                                     gTAAAAACGCAATCGTCAGCAATACCACCATTCCCAg                                                                    <  1:1096120/37‑1 (MQ=255)
                                     gTAAAAACGCAATCGTCAGCAATACCACCATTCCCAg                                                                    <  1:80438/37‑1 (MQ=255)
                                     gTAAAAACGCAATCGTCAGCAATACCACCATTCCCAg                                                                    <  1:803252/37‑1 (MQ=255)
                                     gTAAAAACGCAATCGTCAGCAATACCACCATTCCCAg                                                                    <  1:1753189/37‑1 (MQ=255)
                                     gTAAAAACGCAATCGTCAGCAATACCACCATTCCCAg                                                                    <  1:2021978/37‑1 (MQ=255)
                                     gTAAAAACGCAATCGTCAGCAATACCACCATTCCCAg                                                                    <  1:3638498/37‑1 (MQ=255)
                                      tAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCtt                                 <  1:1704183/71‑1 (MQ=255)
                                       aaaaaCGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGa                                                      >  1:3630320/1‑49 (MQ=255)
                                       aaaaaCGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATa                                              >  1:475297/1‑57 (MQ=255)
                                       aaaaaCGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCtt                                 >  1:2430538/1‑70 (MQ=255)
                                        aaaaCGCAATCGTCAGCAATACCACCATTCTCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCa                               >  1:1323153/1‑71 (MQ=255)
                                        aaaaCGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTc                                <  1:2988015/70‑1 (MQ=255)
                                        aaaaCGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTc                                >  1:1542860/1‑70 (MQ=255)
                                        aaaaCGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCa                               >  1:1116153/1‑71 (MQ=255)
                                        aaaaCGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCa                               >  1:3821693/1‑71 (MQ=255)
                                        aaaaCGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCa                               >  1:3743299/1‑71 (MQ=255)
                                        aaaaCGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCa                               >  1:2554153/1‑71 (MQ=255)
                                            cGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCa                                                <  1:3719035/50‑1 (MQ=255)
                                             gCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCa                          <  1:1306318/71‑1 (MQ=255)
                                             gCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCa                          <  1:1688499/71‑1 (MQ=255)
                                             gCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCa                          <  1:2818059/71‑1 (MQ=255)
                                              cAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCat                         <  1:2183000/71‑1 (MQ=255)
                                               aaTCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCat                         <  1:3683798/70‑1 (MQ=255)
                                                 tCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCa                                                <  1:1950694/45‑1 (MQ=255)
                                                 tCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCa                                                <  1:1517453/45‑1 (MQ=255)
                                                  cGTCAGCAATACCACCATTCCCATAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTg                     >  1:2759593/1‑71 (MQ=255)
                                                  cGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTg                     >  1:72867/1‑71 (MQ=255)
                                                  cGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTg                     >  1:791953/1‑71 (MQ=255)
                                                    tCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCa                          <  1:4059606/64‑1 (MQ=255)
                                                    tCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCa                          <  1:905836/64‑1 (MQ=255)
                                                    tCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCa                          <  1:1503027/64‑1 (MQ=255)
                                                    tCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCa                          <  1:2513625/64‑1 (MQ=255)
                                                      aGCAATTCCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCata                        >  1:961/1‑64 (MQ=255)
                                                      aGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCAt                              >  1:1216985/1‑58 (MQ=255)
                                                      aGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGc                  <  1:2238674/70‑1 (MQ=255)
                                                       gCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGc                  <  1:3756728/69‑1 (MQ=255)
                                                        cAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGAc               >  1:222650/1‑71 (MQ=255)
                                                        cAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGAc               >  1:3919992/1‑71 (MQ=255)
                                                           tACCACCATTCCCAGAACACTTCTCATGACATCCATAGt                                            <  1:2231044/39‑1 (MQ=255)
                                                           tACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCa                          <  1:2130435/57‑1 (MQ=255)
                                                             ccaccaTTCTCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCtt          <  1:3966125/71‑1 (MQ=255)
                                                             ccaccaTTCCCAGAACACTTCTCATGACATCCATAGTGa                                          >  1:1113986/1‑39 (MQ=255)
                                                             ccaccaTTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCata                        >  1:1209421/1‑57 (MQ=255)
                                                             ccaccaTTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCtt          >  1:1634370/1‑71 (MQ=255)
                                                             ccaccaTTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCtt          <  1:3757769/71‑1 (MQ=255)
                                                             ccaccaTTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCtt          >  1:150694/1‑71 (MQ=255)
                                                             ccaccaTTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCtt          >  1:3111159/1‑71 (MQ=255)
                                                             ccaccaTTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCt           <  1:2142487/70‑1 (MQ=255)
                                                             ccaccaTTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCt           >  1:2803425/1‑70 (MQ=255)
                                                             ccaccaTTCCAAGAACACTTCTCATGACATCCATAGTGa                                          >  1:1698973/1‑39 (MQ=255)
                                                             ccacaaTTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCtt          >  1:2153620/1‑71 (MQ=255)
                                                                ccaTTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCTTTCt       <  1:3636241/71‑1 (MQ=255)
                                                                  aTTCCCAGAACACTTCTCATGACATCCATAGTGAt                                         <  1:3373563/35‑1 (MQ=255)
                                                                  aTTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCTTTCTGc     <  1:2562209/71‑1 (MQ=255)
                                                                   ttCTCAGAACACTTCTCATGACATCCATAGTGATTAt                                      >  1:1077343/1‑37 (MQ=255)
                                                                   ttCTCAGAACACTTCTCATGACATCCATAGTGATTAt                                      >  1:1178357/1‑37 (MQ=255)
                                                                   ttCTCAGAACACTTCTCATGACATCCATAGTGATTAt                                      >  1:1072645/1‑37 (MQ=255)
                                                                     cccAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCTTTCTGCCCa  >  1:3143823/1‑71 (MQ=255)
                                                                      |                                                                     
ACGGTACGCAGGCTGATCTTCTTCTTGTTTACTGACAGTAAAAACGCAATCGTCAGCAATACCACCATTCCCAGAACACTTCTCATGACATCCATAGTGATTATCTCTTCATGTCATATTGGGCGACGGCTTTCTGCCCA  >  W3110S.gb/2257385‑2257524

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