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
A13 F1 I2 R1 92 50.6 2362856 94.3% 2228173 111.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,544,191 A→G K155R (AAA→AGA)  fimI → fimbrial protein involved in type 1 pilus biosynthesis

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,544,1910AG100.0% 255.5 / NA 67K155R (AAA→AGA) fimIfimbrial protein involved in type 1 pilus biosynthesis
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (28/39);  total (28/39)

GCCAGGGATAGCCACCAATATTGGCGTAGCGTTGTTTGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAAATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAATGTGATAACAGGAACAGGACAGTGAGTAATAAAAACGT  >  NC_000913/4544063‑4544320
                                                                                                                                |                                                                                                                                 
gCCAGGGATAGCCACCAATATTGGCGTAGCGTTGTTTGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCAAGATATCGTGCt                                                                                                                         >  1:574624/1‑139 (MQ=255)
 ccAGGGATAGCCACCAATATTGGCGTAGCGTTGTTTGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTa                                                                                                                        >  1:102563/1‑139 (MQ=255)
          gCCACCAATATTGGCGTAGCGTTGTTTGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTc                                                                                                               >  2:997237/1‑139 (MQ=255)
          gCCACCAATATTAGCGTAGCGTTGTTTGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTc                                                                                                               >  2:348423/1‑139 (MQ=255)
                     tGGCGTAGCGTTGTTTGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTggc                                                                                                    >  2:503668/1‑139 (MQ=255)
                        cGTAGCGTTGTTTGATGATGAAGGAACCCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTggcggc                                                                                                 <  2:697709/139‑1 (MQ=255)
                         gTAGCGTTGTTTGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCa                                                                                                <  2:768807/139‑1 (MQ=255)
                            gCGTTGTTTGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGata                                                                                                                                <  2:846356/104‑1 (MQ=255)
                            gCGTTGTTTGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTATACTTCGCTACATTTCATCGCCAGata                                                                                                                                >  1:846356/1‑104 (MQ=255)
                               ttgttTGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCa                                                                                          <  1:72921/139‑1 (MQ=255)
                                  tttGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCa                                                                                                <  2:697932/130‑1 (MQ=255)
                                  tttGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCa                                                                                                >  1:697932/1‑130 (MQ=255)
                                       tgatgaAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCa                                                                                                <  2:632017/125‑1 (MQ=255)
                                       tgatgaAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCa                                                                                                >  1:632017/1‑125 (MQ=255)
                                              ggAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGt                                                                           <  2:102563/139‑1 (MQ=255)
                                               gAAGCCTCGTACCGATTAATCGTCCTCCAGCAAACTGGGAGCGGCTTTATTCAGGCTCTACGTCGCTACATTTCGTCGCCAGATGTGGGGGGACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGtt                                                                          <  1:1001993/139‑1 (MQ=255)
                                                        tACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCAt                                                                                               >  2:547471/1‑109 (MQ=255)
                                                        tACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCAt                                                                                               <  1:547471/109‑1 (MQ=255)
                                                         aCCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGcc                                                                                     >  1:783699/1‑118 (MQ=255)
                                                         aCCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGcc                                                                                     <  2:783699/118‑1 (MQ=255)
                                                             aTTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCg                                                                                                                 >  2:988108/1‑86 (MQ=255)
                                                             aTTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCg                                                                                                                 <  1:988108/86‑1 (MQ=255)
                                                             aTTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCa                                                                                          <  1:794395/109‑1 (MQ=255)
                                                             aTTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCa                                                                                          >  2:794395/1‑109 (MQ=255)
                                                             aTTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATc                                                            >  1:1035379/1‑139 (MQ=255)
                                                              ttAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCa                                                           >  1:581495/1‑139 (MQ=255)
                                                                  tCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTaa                                                       <  2:587968/139‑1 (MQ=255)
                                                                    gTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCAGCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAAtt                                                     <  1:1124820/139‑1 (MQ=255)
                                                                       ctccAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTaa                                                                  >  1:603780/1‑123 (MQ=255)
                                                                       ctccAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTaa                                                                  <  2:603780/123‑1 (MQ=255)
                                                                       ctccAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGtt                                                  <  2:581495/139‑1 (MQ=255)
                                                                          cAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCa                                                                                          >  1:1044491/1‑96 (MQ=255)
                                                                          cAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCa                                                                                          <  2:1044491/96‑1 (MQ=255)
                                                                               agcTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGAt                                          <  2:574624/137‑1 (MQ=255)
                                                                               aaCTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTgg                                                                            >  2:977380/1‑105 (MQ=255)
                                                                               aaCTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTgg                                                                            <  1:977380/105‑1 (MQ=255)
                                                                               aaCTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGAt                                          <  2:1035379/139‑1 (MQ=255)
                                                                                aCTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATa                                         >  2:1004610/1‑139 (MQ=255)
                                                                                  tGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCCATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAAt                                       <  2:732804/139‑1 (MQ=255)
                                                                                     aaaCGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAAtgtg                                    <  1:670125/139‑1 (MQ=255)
                                                                                       aCGGCTTTATTCATGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAATGTGAt                                  <  2:680489/139‑1 (MQ=255)
                                                                                          gCTTTATTGAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAATGTGATaac                               <  1:715628/139‑1 (MQ=255)
                                                                                          gCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAATGTGATaac                               <  1:1004610/139‑1 (MQ=255)
                                                                                          gCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAATGTGATaac                               <  1:348423/139‑1 (MQ=255)
                                                                                               aTTCAGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAATGTGATaacaggaa                          <  1:503668/139‑1 (MQ=255)
                                                                                                   aGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGAt                                          >  2:783623/1‑119 (MQ=255)
                                                                                                   aGGCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGAt                                          <  1:783623/119‑1 (MQ=255)
                                                                                                    ggCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAATGTGATAacaggaacagga                     <  2:187479/139‑1 (MQ=255)
                                                                                                     gCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCa                                                                                          <  2:654489/69‑1 (MQ=255)
                                                                                                     gCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGt                                                                           <  2:1085953/84‑1 (MQ=255)
                                                                                                     gCTCTACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGt                                                                           >  1:1085953/1‑84 (MQ=255)
                                                                                                     gCTCTACTTCGCTACATTGCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCa                                                                                          >  1:654489/1‑69 (MQ=255)
                                                                                                        ctACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGcc                                                                                     <  2:442172/71‑1 (MQ=255)
                                                                                                        ctACTTCGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGcc                                                                                     >  1:442172/1‑71 (MQ=255)
                                                                                                              cGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCa                                                                                          <  1:277245/60‑1 (MQ=255)
                                                                                                              cGCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCa                                                                                          >  2:277245/1‑60 (MQ=255)
                                                                                                               gCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGt                                                         >  2:1026953/1‑92 (MQ=255)
                                                                                                               gCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGt                                                         <  1:1026953/92‑1 (MQ=255)
                                                                                                               gCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAAtgt                                     >  1:776256/1‑112 (MQ=255)
                                                                                                               gCTACATTTCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAAtgt                                     <  2:776256/112‑1 (MQ=255)
                                                                                                                     tttCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAATGTGATAACAGGAACAGGACa                   <  1:445153/124‑1 (MQ=255)
                                                                                                                     tttCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAATGTGATAACAGGAACAGGACa                   >  2:445153/1‑124 (MQ=255)
                                                                                                                      ttCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCGGCAGATAATGTGATaac                               <  1:673064/111‑1 (MQ=255)
                                                                                                                      ttCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAATGTGATaac                               >  2:673064/1‑111 (MQ=255)
                                                                                                                       tCATCGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAATGTGATAACAGGAACAGGACAGTGAGTAATAAAAACGt  <  2:987345/139‑1 (MQ=255)
                                                                                                                           cGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGt                                                                           <  1:277031/62‑1 (MQ=255)
                                                                                                                           cGCCAGATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGt                                                                           >  2:277031/1‑62 (MQ=255)
                                                                                                                                |                                                                                                                                 
GCCAGGGATAGCCACCAATATTGGCGTAGCGTTGTTTGATGATGAAGGAAACCTCGTACCGATTAATCGTCCTCCAGCAAACTGGAAACGGCTTTATTCAGGCTCTACTTCGCTACATTTCATCGCCAAATATCGTGCTACCGGGCGTCGGGTTACTGGCGGCATCGCCAATGCCCAGGCCTGGTTCTCTTTAACCTATCAGTAATTGTTCAGCAGATAATGTGATAACAGGAACAGGACAGTGAGTAATAAAAACGT  >  NC_000913/4544063‑4544320

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ 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