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
A7 F1 I2 R1 766 64.2 3232166 90.9% 2938038 104.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,218,207 C→T A117A (GCG→GCA)  yehY ← putative ABC transporter permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,218,2070CT100.0% 174.2 / NA 54A117A (GCG→GCA) yehYputative ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (28/26);  total (28/26)

GAGATCGTTAAGCGTGCCGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGCGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCACACCAGCAATACGAAGACGAATTGCGCCAGAATGAGTGCA  >  NC_000913/2218078‑2218339
                                                                                                                                 |                                                                                                                                    
gagaTCGTTAAGCGTGCCGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAACAATGCCAGTGCCGcagcc                                                                                                                             >  1:354166/1‑139 (MQ=255)
   aTCGTTAAGCGTGCCGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGcagccagc                                                                                                                          >  2:151461/1‑139 (MQ=255)
    tCGTTAAGCGTGCCGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCagccagcc                                                                                                                         >  2:259072/1‑139 (MQ=255)
       ttAAGCGTGCCGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACAAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGa                                                                                                                      >  2:1359198/1‑139 (MQ=255)
              ggCCGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACt                                                                                                               >  1:309391/2‑139 (MQ=255)
               gCCGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTg                                                                                                              >  1:678450/1‑139 (MQ=255)
               gCCGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTg                                                                                                              >  1:22575/1‑139 (MQ=255)
               gCCGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATACGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTg                                                                                                              >  1:987518/1‑139 (MQ=255)
                ccGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGa                                                                                                                      >  2:1565575/1‑130 (MQ=255)
                ccGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGa                                                                                                                      <  1:1565575/130‑1 (MQ=255)
                ccGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGc                                                                                                             <  2:1195688/139‑1 (MQ=255)
                      tACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGc                                                                                                       <  2:1097809/139‑1 (MQ=255)
                           cAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACATGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTa                                                                                                  <  2:987518/139‑1 (MQ=255)
                             aCCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTAcg                                                                                                <  1:787814/139‑1 (MQ=255)
                              ccACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGcc                                                                                                            >  1:1299856/1‑126 (MQ=255)
                              ccACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGcc                                                                                                            <  2:1299856/126‑1 (MQ=255)
                                         taatGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACt                                                                                    >  1:1005514/1‑139 (MQ=255)
                                               cAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCAtt                                                                              <  1:259072/139‑1 (MQ=255)
                                                              acaacCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGt                                                               <  1:151461/139‑1 (MQ=255)
                                                               caacCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTc                                                              <  2:690747/139‑1 (MQ=255)
                                                                     gcgcCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCGGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCgccgcc                                                        >  2:1068233/1‑139 (MQ=255)
                                                                      cgcCACAGCGGATGCGAGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAgtgc                                                                                                                                    >  1:1050305/1‑62 (MQ=255)
                                                                         cacaGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTc                                                    >  1:735983/1‑139 (MQ=255)
                                                                            aGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGTCGCCTTTCCAg                                                 >  2:89042/1‑139 (MQ=255)
                                                                            aGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAg                                                 <  2:309391/139‑1 (MQ=255)
                                                                            aGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAg                                                 >  1:435394/1‑139 (MQ=255)
                                                                              cGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAACAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCt                                               <  2:354166/139‑1 (MQ=255)
                                                                                 aTGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTccc                                            <  1:1359198/139‑1 (MQ=255)
                                                                                 aTGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTccc                                            <  2:435394/139‑1 (MQ=255)
                                                                                   gCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCca                                          <  2:260386/139‑1 (MQ=255)
                                                                                    cGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCcac                                         <  2:678450/139‑1 (MQ=255)
                                                                                      tGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGcagcc                                                                                                                             >  2:1593105/1‑53 (MQ=255)
                                                                                      tGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGcagcc                                                                                                                             <  1:1593105/53‑1 (MQ=255)
                                                                                        gagaTTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGc                                                                                                       >  2:574516/1‑73 (MQ=255)
                                                                                        gagaTTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGc                                                                                                       <  1:574516/73‑1 (MQ=255)
                                                                                            ttCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGcagccag                                                                                                                           >  1:877821/1‑49 (MQ=255)
                                                                                            ttCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGcagccag                                                                                                                           <  2:877821/49‑1 (MQ=255)
                                                                                               ggcggATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCcac                                         >  1:1193146/1‑128 (MQ=255)
                                                                                               ggcggATGGCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCcac                                         <  2:1193146/128‑1 (MQ=255)
                                                                                                      ggCATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGGCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCACACCAGCAATACGAAGACg                       >  1:978355/1‑139 (MQ=255)
                                                                                                        cATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGTCGCCTTTCCAGCTCCCCACACCAGCAATACGAAGACGaa                     <  1:89042/139‑1 (MQ=255)
                                                                                                        cATCGCTACAGGCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCACACCAGCAATACGAAGACGaa                     <  2:1005514/139‑1 (MQ=255)
                                                                                                                   gCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCACACCAGCAATACGAAGACGAAtt                   >  2:1413140/1‑130 (MQ=255)
                                                                                                                   gCCAGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCACACCAGCAATACGAAGACGAAtt                   <  1:1413140/130‑1 (MQ=255)
                                                                                                                      aGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCAt                                                                               <  2:955129/67‑1 (MQ=255)
                                                                                                                      aGCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCAt                                                                               >  1:955129/1‑67 (MQ=255)
                                                                                                                       gCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGt                                                               >  1:74640/1‑82 (MQ=255)
                                                                                                                       gCAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGt                                                               <  2:74640/82‑1 (MQ=255)
                                                                                                                        cAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCACACCAGCAATACGAAGACGAATTGCGCCAGAATGAGt     >  1:49140/1‑139 (MQ=255)
                                                                                                                        cAATGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCACACCAGCAATACGAAGACGAATTGCGCCAGAATGAGt     >  1:553190/1‑139 (MQ=255)
                                                                                                                           tGCCAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCACACCAGCAATACGAAGACGAATTGCGCCAGAATGAGTGca  >  1:736027/1‑139 (MQ=255)
                                                                                                                             ccAGTGCCGCAGCCAGCCGGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCACACCAGc                                   >  1:895267/1‑104 (MQ=255)
                                                                                                                             ccAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGTGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCacac                                       >  2:1561570/1‑100 (MQ=255)
                                                                                                                             ccAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGTGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCacac                                       <  1:1561570/100‑1 (MQ=255)
                                                                                                                             ccAGTGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCACACCAGc                                   <  2:895267/104‑1 (MQ=255)
                                                                                                                                 |                                                                                                                                    
GAGATCGTTAAGCGTGCCGGAGTACAGCAACCACAGCGGAATAATGGCAATCTGCATATGCAACAACCAGCGCCACAGCGGATGCGTGGAGATTCGGCGGATGGCATCGCTACAGGCCAGCAATGCCAGCGCCGCAGCCAGCCAGAAACCACTGCCGAGGCTGGTACGCGCCAGCGCACTGCCATTTTGCGCCAGTTGGGTCGCCGCCTTTCCAGCTCCCCACACCAGCAATACGAAGACGAATTGCGCCAGAATGAGTGCA  >  NC_000913/2218078‑2218339

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A