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
A11 F212 I1 R1 174 80.0 3892211 96.7% 3763768 99.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,971,690 A→C Q144P (CAG→CCG)  wecC → UDP‑N‑acetyl‑D‑mannosaminuronic acid dehydrogenase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,971,6900AC98.2% 193.1 / ‑4.8 55Q144P (CAG→CCG) wecCUDP‑N‑acetyl‑D‑mannosaminuronic acid dehydrogenase
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base C (28/26);  total (28/27)
Fisher's exact test for biased strand distribution p-value = 4.91e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.35e-01

GCGCGCTGGTGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCAGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATCGCG  >  NC_000913/3971594‑3971785
                                                                                                |                                                                                               
gcgcgcTGGTGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCgccgca                                                                                              <  1:1335252/100‑1 (MQ=255)
gcgcgcTGGTGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGACCTCACTTTCCCgcagca                                                                                              >  1:1452347/1‑100 (MQ=255)
         tGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGCGCGa                                                                                     <  1:944803/100‑1 (MQ=255)
         tGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGAAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGa                                                                                     >  1:379834/1‑100 (MQ=255)
            tCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCa                                                                                  >  2:953142/1‑100 (MQ=255)
            tCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCa                                                                                  >  2:155005/1‑100 (MQ=255)
             ccTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGACCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAg                                                                                 >  2:1367000/1‑100 (MQ=255)
              cTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAgg                                                                                >  2:1427043/1‑100 (MQ=255)
               ttGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGc                                                                               <  2:1250327/100‑1 (MQ=255)
               ttGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCAGCAGGTGGGCGAGCAGGc                                                                               <  1:120425/100‑1 (MQ=255)
                 gAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCgg                                                                             <  1:513743/100‑1 (MQ=255)
                 gAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCgg                                                                             <  1:1756198/100‑1 (MQ=255)
                 gAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCgg                                                                             >  2:467287/1‑100 (MQ=255)
                  aaTCCACGTCGACGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATATCACTTTCTCGCCGCAGGTGGGCGAGCAGGCGGa                                                                            >  1:1023400/1‑100 (MQ=255)
                      cACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTc                                                                        >  2:1265868/1‑100 (MQ=255)
                      cACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTc                                                                        <  2:1095384/100‑1 (MQ=255)
                       aCCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCa                                                                       <  2:1938747/100‑1 (MQ=255)
                       aCCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCa                                                                       >  1:1938734/1‑100 (MQ=255)
                        ccTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCaa                                                                      >  2:845690/1‑100 (MQ=255)
                        ccTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCaa                                                                      >  2:937016/1‑100 (MQ=255)
                        ccTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTGTACCGCCCCAGGTGGGCGAGCAGGCGGACGTCa                                                                       >  1:234480/1‑99 (MQ=255)
                                gTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCtt                                                              <  1:312672/100‑1 (MQ=255)
                                gTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCtt                                                              <  1:107316/100‑1 (MQ=255)
                                 tGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCtt                                                              <  1:617001/99‑1 (MQ=255)
                                   gggTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACt                                                           <  1:1904127/100‑1 (MQ=255)
                                    ggTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTg                                                          >  2:464472/1‑100 (MQ=255)
                                    ggTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTg                                                          >  2:95127/1‑100 (MQ=255)
                                     gTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGc                                                         >  2:995007/1‑100 (MQ=255)
                                      tCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGcc                                                        <  2:1474647/100‑1 (MQ=255)
                                          ccGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGa                                                    <  1:741630/100‑1 (MQ=255)
                                            gagaAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAAc                                                  <  2:1043406/100‑1 (MQ=255)
                                             agaagaTGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAAcg                                                 >  1:444034/1‑100 (MQ=255)
                                               aagaTGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAAcgcg                                               <  1:749444/100‑1 (MQ=255)
                                               aagaTGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAAcgcg                                               <  2:1662540/100‑1 (MQ=255)
                                                 gaTGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCgtg                                             <  1:1154834/100‑1 (MQ=255)
                                                 gaTGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCgtg                                             <  1:425291/100‑1 (MQ=255)
                                                   tGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGtt                                           >  1:752810/1‑100 (MQ=255)
                                                     gCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTAc                                         >  1:475388/1‑100 (MQ=255)
                                                      cAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTAcc                                        <  1:155004/100‑1 (MQ=255)
                                                         aaTGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAgg                                     >  2:1283154/1‑100 (MQ=255)
                                                            ggTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACa                                  <  1:1427035/100‑1 (MQ=255)
                                                             gTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCACCATTGCTTACTGCCCGGAACGCGTGTTACCAGGAc                                   >  2:1837297/1‑98 (MQ=255)
                                                             gTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAg                                 <  1:1101342/100‑1 (MQ=255)
                                                               tAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGt                               >  1:1269152/1‑100 (MQ=255)
                                                                aGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTa                              <  1:1265864/100‑1 (MQ=255)
                                                                        tGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGa                      >  2:1567920/1‑100 (MQ=255)
                                                                          cGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGc                    >  2:13229/1‑100 (MQ=255)
                                                                          cGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGc                    >  1:1610487/1‑100 (MQ=255)
                                                                           gTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCt                   <  1:166073/100‑1 (MQ=255)
                                                                           gTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCt                   >  2:113533/1‑100 (MQ=255)
                                                                           gTCCGGATCTCACTTT‑CCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTg                  >  1:1108635/1‑100 (MQ=255)
                                                                              cGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGAt                >  2:1080673/1‑100 (MQ=255)
                                                                                   ctcACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTaaaa           >  1:225300/1‑100 (MQ=255)
                                                                                    tcACTTTCCCGCCGCAGGTGGGCGATCAGGCGGTCGTCAACATTGCTTACTGCCCGGAACGCTTGTTACCAGGACAGGTAATGCTCGAGCTGATTaaaa           <  1:1764376/99‑1 (MQ=255)
                                                                                        tttCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGAt      <  2:1582656/100‑1 (MQ=255)
                                                                                        tttCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACAGTGCTTACTGCCCGGAACGCGTATTACCAGGACAGGTAATGGTCGAGCTGATTAAAAAc         <  1:1192083/97‑1 (MQ=255)
                                                                                           cccGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATcg    <  1:467285/99‑1 (MQ=255)
                                                                                            ccgccgCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATcgcg  >  2:1148461/1‑100 (MQ=255)
                                                                                            ccgccgCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATcgcg  >  1:902234/1‑100 (MQ=255)
                                                                                                |                                                                                               
GCGCGCTGGTGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCAGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATCGCG  >  NC_000913/3971594‑3971785

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A