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 F56 I1 R1 155 65.2 3164312 95.9% 3034575 99.8

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_0009133,971,6900AC95.9% 170.9 / ‑3.5 49Q144P (CAG→CCG) wecCUDP‑N‑acetyl‑D‑mannosaminuronic acid dehydrogenase
Reads supporting (aligned to +/- strand):  ref base A (2/0);  new base C (23/24);  total (25/24)
Fisher's exact test for biased strand distribution p-value = 4.90e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCGCGCTGGTGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCAGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATCGCGTG  >  NC_000913/3971594‑3971787
                                                                                                |                                                                                                 
gcgcgcTGGTGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCgccgca                                                                                                <  1:212315/100‑1 (MQ=255)
 cgcgcTGGTGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGccgcag                                                                                               >  1:943721/1‑100 (MQ=255)
       ggTGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGc                                                                                         >  1:1221308/1‑100 (MQ=255)
        gTGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCg                                                                                        >  1:1347299/1‑100 (MQ=255)
         tGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGCGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGa                                                                                       >  2:561634/1‑100 (MQ=255)
          gATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAg                                                                                      <  1:914596/100‑1 (MQ=255)
          gATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAg                                                                                      <  2:1542059/100‑1 (MQ=255)
               ttGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGc                                                                                 <  1:416594/100‑1 (MQ=255)
                     ccACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGGTCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACg                                                                            >  2:1482461/1‑99 (MQ=255)
                      cACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCAGCAGGTGGGCGAGCAGGCGGACGTc                                                                          >  1:1473348/1‑100 (MQ=255)
                        ccTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCaa                                                                        >  1:208807/1‑100 (MQ=255)
                            gCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGGGAGGCGTCCGGATCTCACGTTCCCGCCGCTGGTGGGCGAGCGGGCCGACGTCAACAt                                                                     >  2:232023/1‑99 (MQ=255)
                                gTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCtt                                                                <  2:1146317/100‑1 (MQ=255)
                                   gggTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGGTCGCACGATAGCGGAGGAGGAGGGCGCGCACGCGCGCGTAAACAGTgta                                                                 >  2:1408896/1‑94 (MQ=255)
                                    ggTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTg                                                            >  1:1055913/1‑100 (MQ=255)
                                     gTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGc                                                           >  1:810146/1‑100 (MQ=255)
                                       cAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGccc                                                         >  1:735344/1‑100 (MQ=255)
                                         aCCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCgg                                                       <  2:1221303/100‑1 (MQ=255)
                                         aCCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCgg                                                       <  1:1134057/100‑1 (MQ=255)
                                         aCCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCgg                                                       <  1:612872/100‑1 (MQ=255)
                                         aCCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCgg                                                       <  2:441254/100‑1 (MQ=255)
                                            gagaAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAAc                                                    <  1:933240/100‑1 (MQ=255)
                                              gaagaTGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAAcgc                                                  <  2:69718/100‑1 (MQ=255)
                                                 gaTGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCgtg                                               <  2:431906/100‑1 (MQ=255)
                                                   tGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGtt                                             >  1:712685/1‑100 (MQ=255)
                                                   tGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGtt                                             <  1:398969/100‑1 (MQ=255)
                                                     gCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTAc                                           >  2:1020338/1‑100 (MQ=255)
                                                      cAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTAcc                                          <  2:635476/100‑1 (MQ=255)
                                                      cAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTAcc                                          >  2:1478118/1‑100 (MQ=255)
                                                        gAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAg                                        <  2:907928/100‑1 (MQ=255)
                                                          aTGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGa                                      <  1:1482470/100‑1 (MQ=255)
                                                             gTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAg                                   >  2:1089918/1‑100 (MQ=255)
                                                               tAGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAgg                                  >  1:1322027/1‑99 (MQ=255)
                                                                aGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGGAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTa                                <  2:835015/100‑1 (MQ=255)
                                                                aGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTa                                <  1:328395/100‑1 (MQ=255)
                                                                aGCAGAGATGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTa                                >  2:370583/1‑100 (MQ=255)
                                                                    gagaTGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATgg                            >  2:1369351/1‑100 (MQ=255)
                                                                        tGCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGa                        >  1:725057/1‑100 (MQ=255)
                                                                         gCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAg                       >  2:13088/1‑100 (MQ=255)
                                                                         gCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAg                       >  2:493376/1‑100 (MQ=255)
                                                                         gCGTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAg                       >  2:493318/1‑100 (MQ=255)
                                                                           gTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCt                     <  1:881325/100‑1 (MQ=255)
                                                                           gTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCt                     >  1:98808/1‑100 (MQ=255)
                                                                           gTCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCt                     <  1:232023/100‑1 (MQ=255)
                                                                            tCCGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTg                    <  2:1563028/100‑1 (MQ=255)
                                                                              cGGATCTCACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGAt                  <  2:1221206/100‑1 (MQ=255)
                                                                                    tcACTTTCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTaaaaa            <  2:565865/100‑1 (MQ=255)
                                                                                         ttCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATc       >  1:970055/1‑100 (MQ=255)
                                                                                         ttCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATc       <  1:1478126/100‑1 (MQ=255)
                                                                                          tCCCGCCGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATcg      <  2:768601/100‑1 (MQ=255)
                                                                                           cccGCCGCAGGTGGGCGAGAAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATcgc     >  2:302724/1‑100 (MQ=255)
                                                                                            ccgccgCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATcgcg    <  2:98808/100‑1 (MQ=255)
                                                                                            ccgccgCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATcgcg    >  1:387065/1‑100 (MQ=255)
                                                                                            ccgccgCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATcgcg    <  2:204684/100‑1 (MQ=255)
                                                                                              gcagcaGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATCGCGTg  >  2:612326/1‑100 (MQ=255)
                                                                                                |                                                                                                 
GCGCGCTGGTGATCCTTGAATCCACCTCGCCGGTGGGGTCAACCGAGAAGATGGCAGAATGGTTAGCAGAGATGCGTCCGGATCTCACTTTCCCGCAGCAGGTGGGCGAGCAGGCGGACGTCAACATTGCTTACTGCCCGGAACGCGTGTTACCAGGACAGGTAATGGTCGAGCTGATTAAAAACGATCGCGTG  >  NC_000913/3971594‑3971787

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A