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 F1 I2 R1 760 67.6 3323148 92.7% 3080558 109.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,769,486 G→A *274* (TAG→TAA)  yfjQ → CP4‑57 prophage, uncharacterized protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,769,4860GA100.0% 201.6 / NA 62*274* (TAG→TAA) yfjQCP4‑57 prophage, uncharacterized protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (35/27);  total (35/27)

GACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGT  >  NC_000913/2769359‑2769617
                                                                                                                               |                                                                                                                                   
gACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGt                                                                                                                          >  1:1347345/1‑139 (MQ=255)
gACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACCGCAGTAAACGTTTCATGt                                                                                                                          >  1:139697/1‑139 (MQ=255)
      gTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCAc                                                                                                                    >  2:161806/1‑139 (MQ=255)
      gTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCAc                                                                                                                    <  1:161806/139‑1 (MQ=255)
      gTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACCGCAGTAAACGTTTCATGTTGCCAc                                                                                                                    <  2:139697/139‑1 (MQ=255)
       tGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACg                                                                                                                   <  2:1119686/139‑1 (MQ=255)
             tAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTa                                                                                                             >  2:1634921/1‑139 (MQ=255)
               aTGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAat                                                                                                           >  1:786005/1‑139 (MQ=255)
                tGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAata                                                                                                          <  2:611088/139‑1 (MQ=255)
                 gCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAatat                                                                                                         <  1:1634921/139‑1 (MQ=255)
                   tAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCg                                                                                                       >  2:1009344/1‑139 (MQ=255)
                     aaGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAATTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGa                                                                                                     <  1:1009344/139‑1 (MQ=255)
                          ggACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGAcacca                                                                                                >  2:1484439/1‑139 (MQ=255)
                            aCGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTg                                                                                                                        >  1:226244/1‑113 (MQ=255)
                            aCGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTg                                                                                                                        <  2:226244/113‑1 (MQ=255)
                                     tACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCAt                                                                                     <  2:1279689/139‑1 (MQ=255)
                                     tACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCAt                                                                                     <  2:422416/139‑1 (MQ=255)
                                          gtgccgtgcGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTa                                                                                >  2:912518/1‑139 (MQ=255)
                                           tgccgtgcGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGac                                                                                                    <  2:354881/118‑1 (MQ=255)
                                           tgccgtgcGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGac                                                                                                    >  1:354881/1‑118 (MQ=255)
                                           tgccgtgcGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTAt                                                                               >  2:6003/1‑139 (MQ=255)
                                            gccgtgcGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTAtg                                                                              >  1:1512356/1‑139 (MQ=255)
                                                tgcgtgGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCt                                                                          >  1:394756/1‑139 (MQ=255)
                                                tgcgtgGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCt                                                                          >  1:705896/1‑139 (MQ=255)
                                                  cgtgGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCg                                                                        >  1:442777/1‑139 (MQ=255)
                                                   gtgGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCgt                                                                       <  2:394756/139‑1 (MQ=255)
                                                    tgGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCgtg                                                                      <  2:786005/139‑1 (MQ=255)
                                                      gCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAAGTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGtgtg                                                                    >  2:1129777/1‑139 (MQ=255)
                                                         ttGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCt                                                                 <  1:912518/139‑1 (MQ=255)
                                                                ggATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATccc                                                          <  2:1512356/139‑1 (MQ=255)
                                                                          cTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGcc                                                                                                                      <  2:1527848/69‑1 (MQ=255)
                                                                          cTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGcc                                                                                                                      >  1:1527848/1‑69 (MQ=255)
                                                                                cGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTa                                          <  2:147024/139‑1 (MQ=255)
                                                                                  tGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACgt                                                                                                                  >  1:251222/1‑65 (MQ=255)
                                                                                  tGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACgt                                                                                                                  <  2:251222/65‑1 (MQ=255)
                                                                                  tGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCt                                                                                             >  1:621181/1‑86 (MQ=255)
                                                                                  tGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCt                                                                                             <  2:621181/86‑1 (MQ=255)
                                                                                  tGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAAc                                        >  2:448617/1‑139 (MQ=255)
                                                                                   gcgcTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAAcc                                       >  1:719896/1‑139 (MQ=255)
                                                                                    cgcTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCa                                                                                      <  1:1365563/91‑1 (MQ=255)
                                                                                    cgcTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCa                                                                                      >  2:1365563/1‑91 (MQ=255)
                                                                                       tgtgGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAatat                                                                                                         <  2:812740/69‑1 (MQ=255)
                                                                                       tgtgGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAatat                                                                                                         >  1:812740/1‑69 (MQ=255)
                                                                                       tgtgGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTc                                                                >  2:361238/1‑110 (MQ=255)
                                                                                       tgtgGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTc                                                                <  1:361238/110‑1 (MQ=255)
                                                                                         tgGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGtt                                 >  1:131987/1‑139 (MQ=255)
                                                                                                   cAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGc                                                                                                                       <  2:980254/43‑1 (MQ=255)
                                                                                                   cAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGc                                                                                                                       >  1:980254/1‑43 (MQ=255)
                                                                                                   cAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGt                                  >  2:1634393/1‑128 (MQ=255)
                                                                                                   cAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGt                                  <  1:1634393/128‑1 (MQ=255)
                                                                                                   cAGAAACACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCt                       >  2:1060991/1‑139 (MQ=255)
                                                                                                       aaCACTGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTg                   <  1:1259708/139‑1 (MQ=255)
                                                                                                            tGCTCACGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGaa              >  2:118927/1‑139 (MQ=255)
                                                                                                                  cGCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATaaaa        >  2:1155380/1‑139 (MQ=255)
                                                                                                                   gCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTc                                                                <  2:12860/82‑1 (MQ=255)
                                                                                                                   gCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTc                                                                >  1:12860/1‑82 (MQ=255)
                                                                                                                   gCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAAc                                        <  2:200784/106‑1 (MQ=255)
                                                                                                                   gCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAAc                                        >  1:200784/1‑106 (MQ=255)
                                                                                                                   gCAACTGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATaaaaa       >  1:165611/1‑139 (MQ=255)
                                                                                                                        tGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGa                                                                                                     <  2:1432677/40‑1 (MQ=255)
                                                                                                                        tGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGa                                                                                                     >  1:1432677/1‑40 (MQ=255)
                                                                                                                        tGCAGTAAACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGt  >  1:264383/1‑139 (MQ=255)
                                                                                                                               |                                                                                                                                   
GACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATCTGGCTTTTGCAGAAATAAAAAATAGT  >  NC_000913/2769359‑2769617

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A