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
A6 F1 I2 R1 758 59.3 2864096 93.9% 2689386 105.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,918,647 G→A A404V (GCA→GTA)  atpA ← F1 sector of membrane‑bound ATP synthase, alpha subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,918,6470GA100.0% 209.0 / NA 64A404V (GCA→GTA) atpAF1 sector of membrane‑bound ATP synthase, alpha subunit
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (30/34);  total (30/34)

AACAGAACCAGAGACTGCTGCGCAACGGACATCGGCGCATACTGTTTCTGTTTCAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTGCCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATACGGAAATACCCGGGTTAACCGCAGGACGAATACCGGCGTTGAA  >  NC_000913/3918512‑3918780
                                                                                                                                       |                                                                                                                                     
aaCAGAACCAGAGACTGCTGCGCAACGGACATCGGCGCATACTGTTTCTGTTTCAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCa                                                                                                                                    <  1:699771/139‑1 (MQ=255)
      aCCAGAGACTGCTGCGCAACGGACATCGGCGCATACTGTTTCTGTTTCAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCAc                                                                                                                              <  1:719460/139‑1 (MQ=255)
                  tgcGCAACGGACATCGGCGCATACTGTTTCTGTTTCAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCa                                                                                                                                    <  1:119879/121‑1 (MQ=255)
                  tgcGCAACGGACATCGGCGCATACTGTTTCTGTTTCAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCa                                                                                                                                    >  2:119879/1‑121 (MQ=255)
                  tgcGCAACGGACATCGGCGCATACTGTTTCTGTTTCAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCa                                                                                                                  <  2:1264913/139‑1 (MQ=255)
                    cgcAACGGACATCGGCGCATACTGTTTCTGTTTCAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCaga                                                                                                                >  1:294860/1‑139 (MQ=255)
                                   cgcATACTGTTTCTGTTTCAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGc                                                                                                              >  1:416125/1‑126 (MQ=255)
                                   cgcATACTGTTTCTGTTTCAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGc                                                                                                              <  2:416125/126‑1 (MQ=255)
                                          tgtttctgtttcAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGt                                                                                                           >  1:359463/1‑122 (MQ=255)
                                          tgtttctgtttcAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGt                                                                                                           <  2:359463/122‑1 (MQ=255)
                                             ttctgtttcAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGtt                                                                                                                                 >  1:1011978/1‑97 (MQ=255)
                                             ttctgtttcAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGCTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGtt                                                                                                                                 <  2:1011978/97‑1 (MQ=255)
                                                 gtttcAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGtttttt                                                                                   >  1:766055/1‑139 (MQ=255)
                                                  tttcAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTc                                                                                  >  1:1403266/1‑139 (MQ=255)
                                                  tttcAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTc                                                                                  >  1:218768/1‑139 (MQ=255)
                                                   ttcAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCa                                                                                 <  2:294860/139‑1 (MQ=255)
                                                   ttcAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCa                                                                                 <  1:512666/139‑1 (MQ=255)
                                                   ttcAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCa                                                                                 <  2:459529/139‑1 (MQ=255)
                                                   ttcAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCa                                                                                 >  2:512666/1‑139 (MQ=255)
                                                      agcagTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGa                                                                                                                            <  2:909055/93‑1 (MQ=255)
                                                      agcagTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGa                                                                                                                            >  1:909055/1‑93 (MQ=255)
                                                      agcagTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGa                                                                              >  1:1351581/1‑139 (MQ=255)
                                                          gTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTGATGATCtt                                                                          >  2:869047/1‑139 (MQ=255)
                                                          gTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCa                                                                                 >  2:1149122/1‑132 (MQ=255)
                                                          gTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCa                                                                                 <  1:1149122/132‑1 (MQ=255)
                                                                tCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGt                                                                       >  2:1210677/1‑136 (MQ=255)
                                                                tCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGt                                                                       <  1:1210677/136‑1 (MQ=255)
                                                                          aCCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCagag                                                                                                               >  2:1004382/1‑86 (MQ=255)
                                                                          aCCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCagag                                                                                                               <  1:1004382/86‑1 (MQ=255)
                                                                              tGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCa                                                                                                                               <  1:1382330/66‑1 (MQ=255)
                                                                              tGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCa                                                                                                                               >  2:1382330/1‑66 (MQ=255)
                                                                              tGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACg                                                                                                        <  1:1234012/89‑1 (MQ=255)
                                                                              tGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACg                                                                                                        >  2:1234012/1‑89 (MQ=255)
                                                                              tGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCaa                                                      >  2:257925/1‑139 (MQ=255)
                                                                                gTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAaca                                                    <  1:257925/139‑1 (MQ=255)
                                                                                gTCAAGCTGCTTACGGGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAaca                                                    <  2:824143/139‑1 (MQ=255)
                                                                                       tgctTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATa                                             <  2:217441/139‑1 (MQ=255)
                                                                                       tgctTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATa                                             <  2:766055/139‑1 (MQ=255)
                                                                                       tgctTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATa                                             <  1:694580/139‑1 (MQ=255)
                                                                                         ctTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCa                                                                                 <  1:285008/101‑1 (MQ=255)
                                                                                         ctTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCa                                                                                 >  2:285008/1‑101 (MQ=255)
                                                                                           tACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATACGGa                                         <  2:218768/139‑1 (MQ=255)
                                                                                                   gCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACa                                                                                          >  1:49169/1‑82 (MQ=255)
                                                                                                   gCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACa                                                                                          <  2:49169/82‑1 (MQ=255)
                                                                                                   gCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATACGGAAATACCCg                                 >  1:309439/1‑139 (MQ=255)
                                                                                                      tCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGt                                                                                                           >  1:187022/1‑62 (MQ=255)
                                                                                                      tCGTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGt                                                                                                           <  2:187022/62‑1 (MQ=255)
                                                                                                        gTCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATACGGAAATACCCGGGTTa                            >  2:1034819/1‑139 (MQ=255)
                                                                                                         tCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAaca                                                    <  2:907095/114‑1 (MQ=255)
                                                                                                         tCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAaca                                                    >  1:907095/1‑114 (MQ=255)
                                                                                                         tCAAGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATACGGAAATACCCGGGTTaa                           >  2:659509/1‑139 (MQ=255)
                                                                                                            aGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACa                                                                                          >  2:910444/1‑73 (MQ=255)
                                                                                                            aGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACa                                                                                          <  1:910444/73‑1 (MQ=255)
                                                                                                            aGGTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATACGGAAATACCCGGGTTAACCg                        <  2:1351581/139‑1 (MQ=255)
                                                                                                             ggTCGGATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATACGGAAATACCCGGGTTAACCGc                       <  1:1034819/139‑1 (MQ=255)
                                                                                                                  gATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAac                                                     <  1:1299949/104‑1 (MQ=255)
                                                                                                                  gATGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAac                                                     >  2:1299949/1‑104 (MQ=255)
                                                                                                                   aTGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACg                                                  <  2:1385794/106‑1 (MQ=255)
                                                                                                                   aTGCAAACTGAGAGAACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAAAACg                                                  >  1:1385794/1‑106 (MQ=255)
                                                                                                                             agagaACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACg                                                  >  1:241813/1‑96 (MQ=255)
                                                                                                                             agagaACGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACg                                                  <  2:241813/96‑1 (MQ=255)
                                                                                                                                  aCGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCGACACGGGATACGGAAATACCCGGGTTAACCGCAGGACGTATACCGGCGTTGaa  <  1:869047/139‑1 (MQ=255)
                                                                                                                                   cGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATACGGAAATACCCGGGTTAACCGCAGGa                   <  2:518035/121‑1 (MQ=255)
                                                                                                                                   cGCTACCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATACGGAAATACCCGGGTTAACCGCAGGa                   >  1:518035/1‑121 (MQ=255)
                                                                                                                                       |                                                                                                                                     
AACAGAACCAGAGACTGCTGCGCAACGGACATCGGCGCATACTGTTTCTGTTTCAGCAGTTCGGTCACTTTCTGACCGTGGTCAAGCTGCTTACGTGTTGCATCGTCAAGGTCGGATGCAAACTGAGAGAACGCTGCCAGTTCACGATACTGTGCCAGAGCGGTACGGATACCACCGGACAGTTTTTTCATGATCTTGGTCTGTGCTGCACCACCAACACGGGATACGGAAATACCCGGGTTAACCGCAGGACGAATACCGGCGTTGAA  >  NC_000913/3918512‑3918780

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ 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