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
A12 F1 I1 R1 760 58.2 3022526 90.8% 2744453 102.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,336,405 A→G S209S (AGT→AGC)  adiC ← arginine:agmatine antiporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,336,4050AG100.0% 216.1 / NA 60S209S (AGT→AGC) adiCarginine:agmatine antiporter
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (33/27);  total (33/27)

GATCATCCCCATAATCGCGGTGGTAGAAAGTACATAGCAAACGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCACTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATGCCGCCATATAGGTTTCACCACGGAACCAGAACCAGCCAAATACGGCA  >  NC_000913/4336282‑4336537
                                                                                                                           |                                                                                                                                    
gATCATCCCCATAATCGCGGTGGTAGAAAGTACATAGCAAACGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATg                                                                                                                       <  2:566582/139‑1 (MQ=255)
   catcCCCATAATCGCGGTGGTAGAAAGTACATAGCAAACGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAAc                                                                                                                    >  1:851836/1‑139 (MQ=255)
     tcCCCATAATCGCGGTGGTAGAAAGTACATAGCAAACGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGa                                                                                                                  >  1:705970/1‑139 (MQ=255)
      ccccATAATCGCGGTGGTAGAAAGTACATAGCAAACGGCGGCAATCAATACCGCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGa                                                                                                                         >  1:1019152/1‑131 (MQ=255)
      ccccATAATCGCGGTGGTAGAAAGTACATAGCAAACGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGa                                                                                                                         <  2:1019152/131‑1 (MQ=255)
        ccATAATCGCGGTGGTAGAAAGTACATAGCAAACGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACca                                                                                                               >  2:1259392/1‑139 (MQ=255)
                 cgGTGGTAGAAAGTACATAGCAAACGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGa                                                                                                                         <  2:320139/120‑1 (MQ=255)
                 cgGTGGTAGAAAGTACATAGCAAACGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGa                                                                                                                         >  1:320139/1‑120 (MQ=255)
                 cgGTGGTAGAAAGTACATAGCAAACGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAAc                                                                                                      <  2:851836/139‑1 (MQ=255)
                        aGAAAGTACATAGCAAACGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAgg                                                                                               <  2:1387137/139‑1 (MQ=255)
                        aGAAAGTACATAGCAAACGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAgg                                                                                               <  1:1487468/139‑1 (MQ=255)
                                        aCGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGAc                                                                                                                 <  1:1032964/105‑1 (MQ=255)
                                        aCGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGAc                                                                                                                 >  2:1032964/1‑105 (MQ=255)
                                        aCGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCaa                                                                               >  2:795237/1‑138 (MQ=255)
                                        aCGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCAc                                                                               >  1:1375435/1‑139 (MQ=255)
                                        aCGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCAc                                                                               <  2:705970/139‑1 (MQ=255)
                                         cggcggCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCAcc                                                                              >  2:539154/1‑139 (MQ=255)
                                               caatcaatACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGt                                                                        <  2:1212229/139‑1 (MQ=255)
                                                      tACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAgg                                                                 >  2:664107/1‑139 (MQ=255)
                                                      tACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAgg                                                                 >  1:93145/1‑139 (MQ=255)
                                                           caccaTTGGTGG‑GATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGt                                                                                                         <  1:1335769/93‑1 (MQ=255)
                                                           caccaTTGGTGG‑GATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGt                                                                                                         >  2:1335769/1‑93 (MQ=255)
                                                            accaATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACAcc                                                                                                                           <  1:576111/75‑1 (MQ=255)
                                                            accaATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACAcc                                                                                                                           >  2:576111/1‑75 (MQ=255)
                                                             ccaATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGa                                                          >  1:738095/1‑139 (MQ=255)
                                                             ccaATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGa                                                          >  2:117448/1‑139 (MQ=255)
                                                                aTGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATg                                                                                                                       >  2:48766/1‑75 (MQ=255)
                                                                aTGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATg                                                                                                                       <  1:48766/75‑1 (MQ=255)
                                                                aTGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGt                                                       >  2:394573/1‑139 (MQ=255)
                                                                aTGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGt                                                       >  1:748870/1‑139 (MQ=255)
                                                                      gCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATg                                                 <  2:93145/139‑1 (MQ=255)
                                                                       cGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATgc                                                >  2:823414/1‑139 (MQ=255)
                                                                       cGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATgc                                                <  2:1375435/139‑1 (MQ=255)
                                                                         aTAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATgccg                                              <  1:823414/139‑1 (MQ=255)
                                                                                cATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAAt                                                                                    >  2:639363/1‑94 (MQ=255)
                                                                                cATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAAt                                                                                    <  1:639363/94‑1 (MQ=255)
                                                                                   tGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGc                                                                <  2:1169500/111‑1 (MQ=255)
                                                                                   tGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGc                                                                >  1:1169500/1‑111 (MQ=255)
                                                                                   tGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACAACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATGCCGCCATATAGGt                                    >  1:560980/1‑139 (MQ=255)
                                                                                    gCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGcc                                                                     <  2:901624/105‑1 (MQ=255)
                                                                                    gCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGcc                                                                     >  1:901624/1‑105 (MQ=255)
                                                                                    gCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGc                                                                <  1:466711/110‑1 (MQ=255)
                                                                                    gCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGc                                                                >  2:466711/1‑110 (MQ=255)
                                                                                       tttCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATgc                                                >  1:1114867/1‑123 (MQ=255)
                                                                                       tttCGGGTTTTTCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATgc                                                <  2:1114867/123‑1 (MQ=255)
                                                                                                tttCACCACACCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACAACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATGCCGCCATATAGGTTTCACCACGgaac                       <  2:560980/139‑1 (MQ=255)
                                                                                                        cacCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATGCCGCCATATAGGTTTCACCACg                           <  1:902116/127‑1 (MQ=255)
                                                                                                        cacCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATGCCGCCATATAGGTTTCACCACg                           >  2:902116/1‑127 (MQ=255)
                                                                                                         acCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGt                                                                                                         <  1:1136925/48‑1 (MQ=255)
                                                                                                         acCTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGt                                                                                                         >  2:1136925/1‑48 (MQ=255)
                                                                                                           cTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATGCCGCCATATAGGTTTCACCACGGAACCAGAACCAGcc            >  1:765357/1‑139 (MQ=255)
                                                                                                           cTGCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATGCCGCCATATAGGTTTCACCACGGAACCAGAACCAGcc            <  1:117448/139‑1 (MQ=255)
                                                                                                             gCGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATGCCGCCATATAGGTTTCACCACGGAACCAGAACCAGCCaa          >  2:1376258/1‑139 (MQ=255)
                                                                                                              cGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGt                                                                                                         >  1:1189781/1‑43 (MQ=255)
                                                                                                              cGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGt                                                                                                         <  2:1189781/43‑1 (MQ=255)
                                                                                                              cGGCAACGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATGCCGCCATATAGGTTTCACCACGGAACCAGAACCAGCCaaa         >  2:775386/1‑139 (MQ=255)
                                                                                                                   aCGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAAt                                                                                    <  2:41431/59‑1 (MQ=255)
                                                                                                                   aCGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAAt                                                                                    >  1:41431/1‑59 (MQ=255)
                                                                                                                    cGGAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATGCCGCCATATAGGTTTCACCACGGAACCAGAACCAGCCAAATACGGc   <  2:765357/139‑1 (MQ=255)
                                                                                                                     ggAGGCGCTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATGCCGCCATATAGGCTTCACCACGGAACCAGAACCAGCCAAATACGGCa  >  2:280899/1‑139 (MQ=255)
                                                                                                                           |                                                                                                                                    
GATCATCCCCATAATCGCGGTGGTAGAAAGTACATAGCAAACGGCGGCAATCAATACCCCACCAATGGTGGCGATAGGGACATTGCGTTTCGGGTTTTTCACCACACCTGCGGCAACGGAGGCACTTTCCACACCGATGAACGACCACAGCGTAACGTTAAGGGTACTTTGAATTGCACCGAAGGTGCCCAGGCCGCTGACGTTCCATGCCGCCATATAGGTTTCACCACGGAACCAGAACCAGCCAAATACGGCA  >  NC_000913/4336282‑4336537

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A