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
A74 F1 I1 R1 16 49.9 3507628 96.2% 3374338 75.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA REL606 4,462,990 T→A F76L (TTT→TTA)  yjgN → conserved inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*REL6064,462,9900TA94.5% 404.0 / 11.1 110F76L (TTT→TTA) yjgNconserved inner membrane protein
Reads supporting (aligned to +/- strand):  ref base T (3/3);  new base A (52/52);  total (55/55)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01

Only 100 of 119 total aligned reads displayed.

TTATCTCTATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTTAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGCTTGTTGGC  >  REL606/4462918‑4463062
                                                                        |                                                                        
ttATCTCTATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGt                                                                       <  1:550553/76‑1 (MQ=255)
ttATCTCTATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGt                                                                       >  2:280178/1‑76 (MQ=255)
ttATCTCTATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGt                                                                       <  1:1715989/76‑1 (MQ=255)
 tATCTCTATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAgct                                                                      <  1:1213252/76‑3 (MQ=255)
 tATCTCTATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGtt                                                                      <  1:1213241/76‑1 (MQ=255)
  aTCTCTATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTg                                                                     >  1:382850/1‑76 (MQ=255)
  aTCTCTATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTg                                                                     >  1:41287/1‑76 (MQ=255)
   tctcTATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGt                                                                    <  1:597880/76‑1 (MQ=255)
    ctctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTc                                                                   >  1:1090350/1‑76 (MQ=255)
    ctctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTc                                                                   >  1:1474915/1‑76 (MQ=255)
     tctGTGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCt                                                                  >  1:50294/1‑76 (MQ=255)
     tctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCt                                                                  >  1:50315/1‑76 (MQ=255)
      ctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGGATTACTGGTGGGAATGTTTTTTTAAGTTGTCtt                                                                 >  2:772972/1‑76 (MQ=255)
      ctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTTAGTTGTCtt                                                                 <  1:1579372/76‑1 (MQ=255)
      ctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCtt                                                                 >  2:1364978/1‑76 (MQ=255)
      ctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCtt                                                                 >  1:1717724/1‑76 (MQ=255)
      ctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCtt                                                                 >  1:248979/1‑76 (MQ=255)
      ctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCtt                                                                 <  2:1596621/76‑1 (MQ=255)
      ctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCtt                                                                 >  1:563084/1‑76 (MQ=255)
      ctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCtt                                                                 >  1:1399905/1‑76 (MQ=255)
      ctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCtt                                                                 >  2:542599/1‑76 (MQ=255)
      ctATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCtt                                                                 >  2:1322714/1‑76 (MQ=255)
       tATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCttg                                                                >  1:125/1‑76 (MQ=255)
        aTGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCttgt                                                               >  1:565790/1‑76 (MQ=255)
           cTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTTAGTTGTCttgtttt                                                            <  2:214812/76‑1 (MQ=255)
           cTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCttgtttt                                                            <  2:1163532/76‑1 (MQ=255)
             aaTATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCttgtttttg                                                          >  1:896050/1‑76 (MQ=255)
              atatGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCttgtttttgt                                                         >  2:743687/1‑76 (MQ=255)
                atGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCttgtttttgttt                                                       <  2:1173042/76‑1 (MQ=255)
                    aaGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGttttttt                                                   <  2:1667742/76‑1 (MQ=255)
                    aaGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGttttttt                                                   <  2:566108/76‑1 (MQ=255)
                     aGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTTAGTTGTCTTGTTTTTGTTTTTTTc                                                  >  2:1126173/1‑76 (MQ=255)
                      gTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCt                                                 >  1:1479711/1‑76 (MQ=255)
                      gTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCt                                                 <  1:500863/76‑1 (MQ=255)
                      gTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCt                                                 <  1:950410/76‑1 (MQ=255)
                       ttAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTa                                                >  1:883907/1‑76 (MQ=255)
                       ttAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTa                                                >  2:976787/1‑76 (MQ=255)
                         aaCGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTAtt                                              >  1:1091656/1‑76 (MQ=255)
                          aCGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTAttt                                             <  2:482281/76‑1 (MQ=255)
                            ggACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCg                                           <  2:1287021/76‑1 (MQ=255)
                              aCAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCa                                         <  1:632945/76‑1 (MQ=255)
                                 aCGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAata                                      <  2:1487614/76‑1 (MQ=255)
                                  cGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAatat                                     <  1:971130/76‑1 (MQ=255)
                                  cGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAatat                                     >  2:864199/1‑76 (MQ=255)
                                    aTTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTa                                   <  2:563084/76‑1 (MQ=255)
                                    aTTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTa                                   <  1:776985/76‑1 (MQ=255)
                                    aTTTTCTTATGGAATTACTGGTGGGAATGGTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTa                                   <  1:776971/76‑1 (MQ=255)
                                     ttttCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTaa                                  <  1:886037/76‑1 (MQ=255)
                                      tttCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAAt                                 <  2:248979/76‑1 (MQ=255)
                                      tttCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAAt                                 >  1:965347/1‑76 (MQ=255)
                                      tttCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAAt                                 <  2:1621468/76‑1 (MQ=255)
                                       ttCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATg                                >  1:621206/1‑76 (MQ=255)
                                       ttCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATg                                <  1:1307358/76‑1 (MQ=255)
                                        tCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGa                               <  2:969469/76‑1 (MQ=255)
                                        tCTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGa                               <  1:1390611/76‑1 (MQ=255)
                                         cTTATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTCCGCAATATTAATGAc                              >  2:320211/1‑76 (MQ=255)
                                          ttATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACa                             <  2:674018/76‑1 (MQ=255)
                                           tATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAg                            >  1:335801/1‑76 (MQ=255)
                                           tATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAg                            <  1:1748251/76‑1 (MQ=255)
                                           tATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAg                            <  2:1463727/76‑1 (MQ=255)
                                           tATGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAg                            <  1:796162/76‑1 (MQ=255)
                                            aTGGAATTACTGGTGGGAATGTTTTTTTTAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAgt                           >  1:1204798/1‑76 (MQ=255)
                                             tGGAATTACTGGTGGGATTGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAgtg                          <  2:422527/76‑1 (MQ=255)
                                             tGGAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAgtg                          <  1:441129/76‑1 (MQ=255)
                                              ggAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAgtgt                         >  1:540074/1‑76 (MQ=255)
                                              ggAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAgtgt                         <  1:27734/76‑1 (MQ=255)
                                              ggAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAgtgt                         <  2:81327/76‑1 (MQ=255)
                                               gAATTACTGGTGGGAATGTTTTTTTTAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTc                        <  2:476111/76‑1 (MQ=255)
                                               gAATTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTc                        <  1:754881/76‑1 (MQ=255)
                                                aaTTACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTca                       >  2:155402/1‑76 (MQ=255)
                                                  ttACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTcagc                     >  2:365103/1‑76 (MQ=255)
                                                   tACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTcagca                    >  1:1054947/1‑76 (MQ=255)
                                                   tACTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTcagca                    <  2:1721247/76‑1 (MQ=255)
                                                    aCTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTcagcag                   <  2:715985/76‑1 (MQ=255)
                                                    aCTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTcagcag                   <  2:716009/76‑1 (MQ=255)
                                                    aCTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTcagcag                   <  1:294052/76‑1 (MQ=255)
                                                    aCTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTCTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTcagcag                   >  1:47569/1‑76 (MQ=255)
                                                     cTGGTGGGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGa                  >  1:1546398/1‑76 (MQ=255)
                                                      tggtggGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGat                 <  1:864199/76‑1 (MQ=255)
                                                      tggtggGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGat                 >  1:610063/1‑76 (MQ=255)
                                                      tggtggGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGat                 >  2:1033783/1‑76 (MQ=255)
                                                        gtggGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGatat               >  2:315214/1‑76 (MQ=255)
                                                        gtggGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGatat               <  1:1375844/76‑1 (MQ=255)
                                                        gtggGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGatat               >  1:1106091/1‑76 (MQ=255)
                                                         tggGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATg              <  1:1046136/76‑1 (MQ=255)
                                                         tggGAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATg              <  2:1465447/76‑1 (MQ=255)
                                                           ggAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGcc            <  2:794905/76‑1 (MQ=255)
                                                           ggAATGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGcc            >  2:1021509/1‑76 (MQ=255)
                                                            gAATGTTTTTTTTAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCg           >  1:750588/1‑76 (MQ=255)
                                                             aaTGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGc          >  2:831180/1‑76 (MQ=255)
                                                             aaTGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGc          >  1:1124784/1‑76 (MQ=255)
                                                              aTGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGCt         >  1:14207/1‑76 (MQ=255)
                                                               tGTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGCtt        >  2:334620/1‑76 (MQ=255)
                                                                gTTTTTTTAAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGCttg       >  2:726197/1‑76 (MQ=255)
                                                                 ttttttttAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGCttga      <  2:1011999/76‑2 (MQ=255)
                                                                 tttttttaAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGCttgt      <  2:1470327/76‑1 (MQ=255)
                                                                 tttttttaAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGCttgt      >  2:413815/1‑76 (MQ=255)
                                                                   tttttaAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGCttgttg    <  1:1052649/76‑1 (MQ=255)
                                                                    ttttaAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGCTTGTTgg   <  1:459855/76‑1 (MQ=255)
                                                                     tttaAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGCTTGTTGGc  >  2:1730624/1‑76 (MQ=255)
                                                                        |                                                                        
TTATCTCTATGCTAATATGGAAGTTAACGGACAACGATTTTCTTATGGAATTACTGGTGGGAATGTTTTTTTTAGTTGTCTTGTTTTTGTTTTTTTCTATTTCGCAATATTAATGACAGTGTCAGCAGATATGCCGCTTGTTGGC  >  REL606/4462918‑4463062

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A