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 F212 I1 R1 174 80.0 3892211 96.7% 3763768 99.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,638,037 C→A A206S (GCG→TCG)  bamB ← BamABCDE complex OM biogenesis lipoprotein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,638,0370CA90.7% 235.8 / 16.2 75A206S (GCG→TCG) bamBBamABCDE complex OM biogenesis lipoprotein
Reads supporting (aligned to +/- strand):  ref base C (5/2);  new base A (33/35);  total (38/37)
Fisher's exact test for biased strand distribution p-value = 4.30e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.48e-01

GAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGCACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTCAGCTTCGTTC  >  NC_000913/2637940‑2638131
                                                                                                 |                                                                                              
gAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAAc                                                                                              <  2:811388/100‑1 (MQ=255)
gAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAAc                                                                                              <  2:1350150/100‑1 (MQ=255)
     ggTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCaaaa                                                                                         >  1:234567/1‑100 (MQ=255)
     ggTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCaaaa                                                                                         >  1:466241/1‑100 (MQ=255)
      gTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAg                                                                                        <  1:1942591/100‑1 (MQ=255)
      gTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAg                                                                                        <  2:852241/100‑1 (MQ=255)
      gTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAg                                                                                        <  2:727743/100‑1 (MQ=255)
        cGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGcc                                                                                      >  2:1117737/1‑100 (MQ=255)
          ccTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGt                                                                                    <  1:676924/100‑1 (MQ=255)
          ccTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGt                                                                                    >  1:1107900/1‑100 (MQ=255)
           cTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGtt                                                                                   <  2:234569/100‑1 (MQ=255)
            tGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTg                                                                                  <  1:45613/100‑1 (MQ=255)
             gggAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGt                                                                                 >  1:194143/1‑100 (MQ=255)
              ggAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTc                                                                                >  2:1416706/1‑100 (MQ=255)
               gAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCg                                                                               >  2:206007/1‑100 (MQ=255)
                aaaTACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCgg                                                                              <  1:261958/100‑1 (MQ=255)
                aaaTACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCgg                                                                              <  2:567255/100‑1 (MQ=255)
                aaaTACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCgg                                                                              <  1:691483/100‑1 (MQ=255)
                    aCGCTGCTGCCAAATCATCTTGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCa                                                                          <  1:1271961/100‑1 (MQ=255)
                       ctgctgCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGCCGGCCGAACCAAAAGCCGTTGTCGGCGCAGAc                                                                       >  2:466410/1‑100 (MQ=255)
                          ctgcCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCg                                                                    <  2:41085/100‑1 (MQ=255)
                          ctgcCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGAAGACtag                                                                    >  2:397292/1‑98 (MQ=255)
                           tgcCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGCACCAAAAGCCGTTGTCGGCGCAGACTCGc                                                                   >  1:1772144/1‑100 (MQ=255)
                            gcCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCCTTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGcc                                                                  >  2:1452752/1‑100 (MQ=255)
                            gcCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGcc                                                                  >  1:77464/1‑100 (MQ=255)
                               aaaTCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACg                                                               >  1:1384002/1‑100 (MQ=255)
                               aaaTCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACg                                                               >  2:476223/1‑100 (MQ=255)
                                aaTCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGCACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGc                                                              <  1:25929/100‑1 (MQ=255)
                                   catcTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCaaa                                                           >  2:346733/1‑100 (MQ=255)
                                   catcTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCaaa                                                           >  1:974696/1‑100 (MQ=255)
                                    atcTGGCCCTGTTCCATCCGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAag                                                          <  1:1938170/100‑1 (MQ=255)
                                    atcTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAag                                                          <  2:409801/100‑1 (MQ=255)
                                         gCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGCACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAagagag                                                      >  1:1350635/1‑99 (MQ=255)
                                          cccTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCg                                                    <  1:768199/100‑1 (MQ=255)
                                             tGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAg                                                 <  2:1107901/100‑1 (MQ=255)
                                              gTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAgg                                                >  1:673324/1‑100 (MQ=255)
                                                 ccATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCat                                             >  2:65067/1‑100 (MQ=255)
                                                     cAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCg                                         <  2:514692/100‑1 (MQ=255)
                                                     cAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCg                                         >  1:154822/1‑100 (MQ=255)
                                                      accACTGCGCTGAAGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGa                                        >  2:1317281/3‑100 (MQ=255)
                                                      aGCACTGCGCTGACGCGACCATTATCGCCCGCCCCGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGATGGCATATCGa                                        >  1:1278497/1‑100 (MQ=255)
                                                        cACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAgg                                      <  1:148381/100‑1 (MQ=255)
                                                          cTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGCACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGtt                                    >  1:482653/1‑100 (MQ=255)
                                                          cTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGtt                                    <  2:595045/100‑1 (MQ=255)
                                                             cgcTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAAc                                 >  2:413346/1‑100 (MQ=255)
                                                               cTGACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTg                               <  1:71216/100‑1 (MQ=255)
                                                                 gACGCGACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTc                             >  1:971282/1‑100 (MQ=255)
                                                                   cgcgACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCa                           >  2:139560/1‑100 (MQ=255)
                                                                   cgcgACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCa                           >  1:1009208/1‑100 (MQ=255)
                                                                   cgcgACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCa                           >  1:17538/1‑100 (MQ=255)
                                                                     cgACCATTATCGCCCCCCACGACGGCCGCACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCAtt                         >  2:50942/1‑100 (MQ=255)
                                                                     cgACCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCAtt                         >  2:1501843/1‑100 (MQ=255)
                                                                       aCCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTg                       <  1:1317274/100‑1 (MQ=255)
                                                                       aCCATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTg                       <  1:1588953/100‑1 (MQ=255)
                                                                        ccATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGa                      >  2:914438/1‑100 (MQ=255)
                                                                        ccATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGa                      >  2:171725/1‑100 (MQ=255)
                                                                         cATTATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGAc                     <  2:839834/100‑1 (MQ=255)
                                                                         cATTATCGCCCCCAACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGAc                     >  2:1312140/1‑100 (MQ=255)
                                                                          aTTAGCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGGCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCAtt                         <  1:1483055/95‑1 (MQ=255)
                                                                           ttATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAg                   <  1:1600617/100‑1 (MQ=255)
                                                                            tATCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAgc                  <  2:91338/100‑1 (MQ=255)
                                                                              tCGCCCCCCACGACGGCCGAACTAAAAGCCGCTGTCGGCGCAGACTCTCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAgcgc                <  1:1312133/100‑1 (MQ=255)
                                                                              tCGCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAgcgc                >  2:1579177/1‑100 (MQ=255)
                                                                                gCCCCCCACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCg              <  2:816855/100‑1 (MQ=255)
                                                                                  cccccACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTc            >  1:205550/1‑100 (MQ=255)
                                                                                   ccccACGACGGCCGCACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTCa           <  2:1350643/100‑1 (MQ=255)
                                                                                   ccccACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTCa           <  2:1627967/100‑1 (MQ=255)
                                                                                    cccACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTCAg          >  2:717866/1‑100 (MQ=255)
                                                                                     ccACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTCAGc         >  1:1921155/1‑100 (MQ=255)
                                                                                     ccACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTCAGc         <  1:1579166/100‑1 (MQ=255)
                                                                                      cACGACGGCCGCACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTCAGCt        >  1:509030/1‑100 (MQ=255)
                                                                                      cACGACGGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTCAGCt        <  1:420032/100‑1 (MQ=255)
                                                                                         gacgGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTCAGCTTCg     <  2:1011505/100‑1 (MQ=255)
                                                                                          acgGCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTCAGCTTCGt    <  2:363763/100‑1 (MQ=255)
                                                                                            ggCCGAACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTCAGCTTCGTTc  <  2:388725/100‑1 (MQ=255)
                                                                                                 |                                                                                              
GAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCCCCACGACGGCCGCACCAAAAGCCGTTGTCGGCGCAGACTCGCCACGCAAAGAGAGCGAAGGCATATCGAGGTTAACTGTCCATTTGACAGCGCCGTCAGCTTCGTTC  >  NC_000913/2637940‑2638131

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A