BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	Exported	313,555	A→C	8.7%	S178S (TCT→TCG) ‡	acrA ←	multidrug efflux system

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	Exported	313,555	0	A	C	8.7%	254.2 / 17.8	103	S178S (TCT→TCG) ‡	acrA	multidrug efflux system
Reads supporting (aligned to +/- strand): ref base A (51/43); new base C (2/7); total (53/50)
Fisher's exact test for biased strand distribution p-value = 8.66e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01

Only 100 of 114 total aligned reads displayed.

CAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTCGCCGCAGTTACCGCAG  >  Exported/313485‑313625

cAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGga                                                                        <  1:2631577/71‑1 (MQ=255)

cAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGA‑CGCTAATCGga                                                                        <  1:4390026/70‑1 (MQ=255)

  gTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGga                                                                        >  1:1120198/1‑69 (MQ=255)

          aCCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGa                                                                 >  1:1387643/1‑68 (MQ=255)

          aCCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACtt                                                              >  1:1000774/1‑71 (MQ=255)

          aCCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACt                                                               <  1:4078213/70‑1 (MQ=255)

             gTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGgag                                                                       >  1:2922155/1‑59 (MQ=255)

              ttCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACttt                                                             <  1:3908390/68‑1 (MQ=255)

              ttCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACttt                                                             <  1:1507394/68‑1 (MQ=255)

              ttCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGgt                                                          >  1:1044453/1‑71 (MQ=255)

              ttCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGgt                                                          >  1:4168834/1‑71 (MQ=255)

              ttCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGgt                                                          >  1:1079468/1‑71 (MQ=255)

               tCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGgtg                                                         >  1:284897/1‑71 (MQ=255)

               tCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGgtg                                                         >  1:278007/1‑71 (MQ=255)

                cTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGgtg                                                         >  1:3060659/1‑70 (MQ=255)

                   tACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGgtgt                                                        <  1:3958640/68‑1 (MQ=255)

                   tACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTa                                                       <  1:1234323/69‑1 (MQ=255)

                   tACCAATGCGCCTTCCGTCACGTGCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGgtgt                                                        <  1:2560667/68‑1 (MQ=255)

                       aaTGCGGCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAg                                                 <  1:4957902/71‑1 (MQ=255)

                          gcgcCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGga                                                                        >  1:877363/1‑45 (MQ=255)

                           cgcCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGga                                                                        >  1:609626/1‑44 (MQ=255)

                           cgcCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGga                                                                        >  1:885729/1‑44 (MQ=255)

                           cgcCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGAtt                                              >  1:1815974/1‑70 (MQ=255)

                           cgcCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGAtt                                              >  1:5604312/1‑70 (MQ=255)

                           cgcCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTg                                             <  1:3291585/71‑1 (MQ=255)

                            gcCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTg                                             <  1:345774/70‑1 (MQ=255)

                              cTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATc                                          >  1:5429045/1‑71 (MQ=255)

                               ttCGGTCACAGTCGATTTGCCGATACGTCCGCTAATTGGCGCAGTGACTTTGGTATAAGc                                                    <  1:5609237/60‑1 (MQ=255)

                               ttCGGTCACAGTCGATTTGCCGATACGTCCGCTAATTGGCGCAGTGACTTTGGTATAAGc                                                    <  1:410310/60‑1 (MQ=255)

                               ttCGGTCACAGTCGATTTGCCGATACGTCCGCTAATTGGCGCAGTGACTTTGGTATAAGc                                                    <  1:4492323/60‑1 (MQ=255)

                               ttCGGTCACAGTCGATTTGCCGATACGTCCGCTAATTGGCGCAGTGACTTTGGTATAAGCAAGATTGAt                                           <  1:2698399/69‑1 (MQ=255)

                               ttCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAg                                                 <  1:333139/63‑1 (MQ=255)

                                tcggTCACAGTCGATTTGCCGATACGTCCGCTAATTGGCGCAGTGACTTTGGTATAAGCAAGATTGa                                            >  1:2488414/4‑67 (MQ=255)

                                tcggTCACAGTCGATTTGCCGATACGTCCGCTAATTGGCGCAGTGACTTTGGTATAAGCAAGATTGa                                            >  1:1674694/4‑67 (MQ=255)

                                 ccGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCcgc                                       >  1:747901/1‑71 (MQ=255)

                                 ccGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCcgc                                       >  1:5309105/1‑71 (MQ=255)

                                  cGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCcgcg                                      <  1:2819622/71‑1 (MQ=255)

                                  cGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCcgcg                                      >  1:3528495/1‑71 (MQ=255)

                                  cGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCcgcg                                      <  1:2231851/71‑1 (MQ=255)

                                   gTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTg                                                            <  1:4627500/48‑1 (MQ=255)

                                   gTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTg                                                            <  1:1119593/48‑1 (MQ=255)

                                    tCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGgtgt                                                        <  1:5474630/51‑1 (MQ=255)

                                    tCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCa                                    <  1:2370381/71‑1 (MQ=255)

                                     cACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGa                                                >  1:105230/1‑58 (MQ=255)

                                     cACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAg                                   >  1:1840239/1‑71 (MQ=255)

                                      aCGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTg                                             >  1:3201007/1‑60 (MQ=255)

                                      aCGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGAt                                           >  1:5252971/1‑62 (MQ=255)

                                      aCGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGt                                  >  1:3249714/1‑71 (MQ=255)

                                      aCGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACATTGGTGTAAGcc                                                   >  1:378175/1‑54 (MQ=255)

                                       cGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACtt                                                              <  1:5043541/42‑1 (MQ=255)

                                         ttCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGc                                                    <  1:4100273/50‑1 (MQ=255)

                                         ttCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTc                               <  1:5258923/71‑1 (MQ=255)

                                          tCGATTTGCCGATACGTCCGCTAATTGGCGCAGTGACTTTGGTATAAGCAAGAtt                                              <  1:905778/55‑1 (MQ=255)

                                          tCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGAtt                                              >  1:3766842/1‑55 (MQ=255)

                                          tCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGAtt                                              >  1:2593473/1‑55 (MQ=255)

                                          tCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGAtt                                              >  1:3141002/1‑55 (MQ=255)

                                          tCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGAtt                                              >  1:3422879/1‑55 (MQ=255)

                                          tCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGa                                            >  1:3952600/1‑57 (MQ=255)

                                           cGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTg                                                            >  1:28298/1‑40 (MQ=255)

                                           cGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTg                                                            >  1:5520484/1‑40 (MQ=255)

                                           cGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCaa                             >  1:717827/1‑71 (MQ=255)

                                              cTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCa                                                  <  1:3053031/47‑1 (MQ=255)

                                              cTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCTCGCAGTTTCAAc                            <  1:3527718/69‑1 (MQ=255)

                                                 aCCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCaa                             >  1:2968328/1‑65 (MQ=255)

                                                 aCCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCaa                             >  1:1506094/1‑65 (MQ=255)

                                                 aCCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAg                       >  1:1059598/1‑71 (MQ=255)

                                                   cAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCt                     <  1:3454192/71‑1 (MQ=255)

                                                    aaTGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCtt                    <  1:5120344/71‑1 (MQ=255)

                                                     aTGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTc                               <  1:5623541/59‑1 (MQ=255)

                                                     aTGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTc                               <  1:4571945/59‑1 (MQ=255)

                                                     aTGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTc                               <  1:1477636/59‑1 (MQ=255)

                                                      tGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCcgcg                                      >  1:1829267/1‑51 (MQ=255)

                                                      tGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCaa                             >  1:3440844/1‑60 (MQ=255)

                                                      tGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGAACcgcga                                     <  1:3967292/52‑2 (MQ=255)

                                                       gCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCaa                             >  1:2261863/1‑59 (MQ=255)

                                                       gCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCaa                             >  1:712816/1‑59 (MQ=255)

                                                       gCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTcg                 >  1:5637393/1‑71 (MQ=255)

                                                        cGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGa                                                >  1:5145249/1‑39 (MQ=255)

                                                          aCCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCa                                    <  1:823128/49‑1 (MQ=255)

                                                          aCCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCa                                    <  1:2506763/49‑1 (MQ=255)

                                                          aCCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCa                                    <  1:4850801/49‑1 (MQ=255)

                                                          aCCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTcgccg              <  1:3844898/71‑1 (MQ=255)

                                                           ccGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTcgccgc             <  1:4261138/71‑1 (MQ=255)

                                                           ccGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTcgccg              >  1:159968/1‑70 (MQ=255)

                                                            cGCTAATTGGCGCAGTGACTTTGGTATAAGCAAGATTGATGCGAGCGCTTTCGACTGTGGCTTTtgcggc             <  1:3684844/70‑1 (MQ=255)

                                                            cGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTCGCCGCa            <  1:137215/71‑1 (MQ=255)

                                                             gCTAATTGGCGCAGTGACTTTGGTATAAGCAAGATTGATGCGAGCGCTTTCGACTGTGGCTTTTGCGGCaa           <  1:2618231/71‑2 (MQ=255)

                                                             gCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTcgccgc             <  1:5635521/69‑1 (MQ=255)

                                                             gCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTcgccgc             <  1:5641863/69‑1 (MQ=255)

                                                             gCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTcgcc               <  1:4520171/67‑1 (MQ=255)

                                                               tAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTcgccgc             >  1:4573751/1‑67 (MQ=255)

                                                               tAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTcgccgc             >  1:3958319/1‑67 (MQ=255)

                                                               tAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTCGCCGCAGt          <  1:4904374/70‑1 (MQ=255)

                                                                  tCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAg                       <  1:418016/54‑1 (MQ=255)

                                                                  tCGGAGAGGTGACTTAGGTGTAAGCCAGATTGATCCGCGCAGTTTCaa                             >  1:2007864/1‑48 (MQ=255)

                                                                   cGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTcg                 >  1:4558197/1‑59 (MQ=255)

                                                                    ggAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTCGCCGCAGTTa        >  1:2674627/1‑67 (MQ=255)

                                                                    ggAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTCGCCGCAGTTa        >  1:523444/1‑67 (MQ=255)

                                                                      agagGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTCGCCGCAGTTACCgcag  <  1:4566644/71‑1 (MQ=255)

                                                                      agagGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTCGCCGCAGTTACCgcag  <  1:4123146/71‑1 (MQ=255)

CAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGCGACCGCTAATCGGAGAGGTGACTTTGGTGTAAGCCAGATTGATCCGCGCAGTTTCAACGGCAGCTTTCGCCGCAGTTACCGCAG  >  Exported/313485‑313625

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`