BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	Exported	2,562,826	T→C	6.6%	A417A (GCA→GCG)	lldP ←	L‑lactate permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	Exported	2,562,826	0	T	C	6.6%	349.6 / 10.2	121	A417A (GCA→GCG)	lldP	L‑lactate permease
Reads supporting (aligned to +/- strand): ref base T (59/54); new base C (3/5); total (62/59)
Fisher's exact test for biased strand distribution p-value = 4.84e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.45e-01

Only 100 of 128 total aligned reads displayed.

CATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGCCGAAGGTGCTGATAG  >  Exported/2562756‑2562896

cATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAAt                                                                        >  1:5169307/1‑71 (MQ=255)

cATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAAt                                                                        >  1:1106407/1‑71 (MQ=255)

cATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAAt                                                                        >  1:3893123/1‑71 (MQ=255)

    aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGc                                                                      >  1:4808018/1‑69 (MQ=255)

     ccGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAg                                                                   >  1:1020275/1‑71 (MQ=255)

     ccGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAg                                                                   <  1:4606298/71‑1 (MQ=255)

             cgcCAGTGCCAGCGCCAGTGTTGATGCCAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATAc                                                           >  1:4262622/1‑71 (MQ=255)

             cgcCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATAc                                                           >  1:5556386/1‑71 (MQ=255)

               ccAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATAcc                                                          >  1:3398620/1‑70 (MQ=255)

               ccAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATAcc                                                          >  1:4946521/1‑70 (MQ=255)

               ccAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCg                                                         <  1:4700014/71‑1 (MQ=255)

                cAGTACCAGCGCCAGCGTGGTGGACATGCCAGAATAGTTGGTGACGAAGGCGAACGCCAGCACCa                                                              <  1:2633657/65‑1 (MQ=255)

                cAGTACCAGCGCCAGCGTGGTGGACATGCCAGAATAGTTGGTGACGAAGGCGAACGCCAGCACCATGccaa                                                        <  1:4206624/71‑3 (MQ=255)

                cAGTACCAGCGCCAGCGTGGTGGACATGCCAGAATAGTTGGTGACGAAGGCGAACGCCAGCACCATGccaa                                                        <  1:5280274/71‑3 (MQ=255)

                 aGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGAt                                                       >  1:239227/1‑71 (MQ=255)

                 aGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGAt                                                       >  1:2159907/1‑71 (MQ=255)

                  gTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATg                                                      <  1:1936672/71‑1 (MQ=255)

                   tGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATg                                                      >  1:5103044/1‑70 (MQ=255)

                   tGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAAT‑AAGGCGAATGCCAGCACCATACCGATGGa                                                    <  1:1114507/71‑1 (MQ=255)

                     ccagcgccagcgTGGTGGACATGCCAGAATAGTTGGTGACGAAGGCGAACGCCAGCACCATGCCAATCGa                                                    <  1:408708/70‑1 (MQ=255)

                     ccagcgccagcgTGGTGGACATGCCAGAATAGTTGGTGACGAAGGCGAACGCCAGCACCATGCCAATCGa                                                    >  1:769714/1‑70 (MQ=255)

                     ccAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATa                                                            >  1:1750329/1‑62 (MQ=255)

                     ccAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAg                                                   >  1:1110052/1‑71 (MQ=255)

                     ccAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAg                                                   <  1:3234846/71‑1 (MQ=255)

                      cAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAg                                                   >  1:5599599/1‑70 (MQ=255)

                      cAGCGCCAGCGTGGTGGACATGCCAGAATAGTTGGTGACGAAGGCGAACGCCAGCACCATGCCAATCGa                                                    <  1:2241158/69‑1 (MQ=255)

                      cAGCGACAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATCCCGATGGAg                                                   >  1:2008963/1‑70 (MQ=255)

                          gcCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGa                                               >  1:4009300/1‑70 (MQ=255)

                           ccAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa                                                 <  1:5275838/67‑1 (MQ=255)

                             aGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCa                                                              >  1:3025819/1‑52 (MQ=255)

                             aGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCa                                                              >  1:1596421/1‑52 (MQ=255)

                               tgtTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGAt                                                       <  1:464769/57‑1 (MQ=255)

                               tgtTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCa                                         <  1:5484630/71‑1 (MQ=255)

                               tgtTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCa                                         <  1:1048842/71‑1 (MQ=255)

                                gtTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCgtt                                                       <  1:33239/56‑3 (MQ=255)

                                 ttGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATgg                                                     >  1:4503950/1‑57 (MQ=255)

                                  tgatgaCAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCaga                                       <  1:2691275/70‑1 (MQ=255)

                                   gatgaCAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCagag                                      <  1:892243/70‑1 (MQ=255)

                                   gatgaCAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGc                                     >  1:3373119/1‑71 (MQ=255)

                                   gatgaCAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGc                                     >  1:1380088/1‑71 (MQ=255)

                                   gatgaCAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGc                                     >  1:741882/1‑71 (MQ=255)

                                   gatgaCAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGc                                     >  1:5530277/1‑71 (MQ=255)

                                   gatgaCAGT‑CGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGc                                     >  1:3243766/1‑70 (MQ=255)

                                       aCAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAg                                  <  1:5286804/70‑1 (MQ=255)

                                        cAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCag                                        >  1:1691005/1‑63 (MQ=255)

                                          gTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGa                                               >  1:1273389/1‑54 (MQ=255)

                                          gTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGa                                               >  1:1311283/1‑54 (MQ=255)

                                           tCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAg                                                <  1:1224405/52‑1 (MQ=255)

                                           tCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCATTTCtt                             >  1:5191361/1‑71 (MQ=255)

                                             cGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCagag                                      >  1:895726/1‑60 (MQ=255)

                                             cGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAg                                  >  1:4927924/1‑64 (MQ=255)

                                             cGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCttt                            >  1:4434644/1‑70 (MQ=255)

                                             cGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCttt                            >  1:5252222/1‑70 (MQ=255)

                                             cGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCttt                            <  1:2064984/70‑1 (MQ=255)

                                             cGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGAT‑‑GCAGAGCCAGTTCTTTCAg                         >  1:3351507/1‑71 (MQ=255)

                                              ggAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGt                                                  <  1:3769596/47‑1 (MQ=255)

                                               gAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCg                                                         <  1:1667538/39‑1 (MQ=255)

                                               gAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAg                         <  1:4092279/71‑1 (MQ=255)

                                               gAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAg                         <  1:920468/71‑1 (MQ=255)

                                                aaTAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGc                        >  1:98151/1‑71 (MQ=255)

                                                 aTAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGa                                                        >  1:3855829/1‑38 (MQ=255)

                                                 aTAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCg                       >  1:2293695/1‑71 (MQ=255)

                                                 aTAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCg                       >  1:4474416/1‑71 (MQ=255)

                                                  tAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGa                                                        <  1:4163940/37‑1 (MQ=255)

                                                  tAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGAt                                                       <  1:2100207/38‑1 (MQ=255)

                                                  tAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGAt                                                       <  1:5232841/38‑1 (MQ=255)

                                                  tAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGAt                                                       <  1:1822402/38‑1 (MQ=255)

                                                  tAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGAt                                                       <  1:3255176/38‑1 (MQ=255)

                                                  tAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGAt                                                       <  1:3068388/38‑1 (MQ=255)

                                                  tAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATggg                                           >  1:735929/1‑50 (MQ=255)

                                                  tAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATggg                                           >  1:300886/1‑50 (MQ=255)

                                                  tAGTTCGAAATAAACGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGc                        <  1:5394239/69‑1 (MQ=255)

                                                   aGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCa                                         <  1:3090354/51‑1 (MQ=255)

                                                   aGTTCGAAAT‑AAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCa                                         <  1:1365776/50‑1 (MQ=255)

                                                    gTTCGAAATAAAGGCGAATGCCAGCACCATACCGATg                                                      >  1:3503937/1‑37 (MQ=255)

                                                    gTTCGAAATAAAGGCGAATGCCAGCACCATACCGATg                                                      >  1:636022/1‑37 (MQ=255)

                                                    gTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGc                                     >  1:1397448/1‑54 (MQ=255)

                                                    gTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGtgc                    >  1:856961/1‑71 (MQ=255)

                                                    gTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGtgc                    <  1:230483/71‑1 (MQ=255)

                                                     ttCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGtgct                   <  1:1887200/71‑1 (MQ=255)

                                                     ttCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGtgct                   <  1:2344279/71‑1 (MQ=255)

                                                     ttCGAAATAAAGGCGAATGCCAGCACCATACCGAAGGAGTAGATGGGCAGAGCCAGtt                                <  1:1658827/58‑1 (MQ=255)

                                                       cGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCa                                   >  1:4261842/1‑53 (MQ=255)

                                                       cGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGtg                     >  1:2850442/1‑67 (MQ=255)

                                                        gAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGcc                <  1:2541147/71‑1 (MQ=255)

                                                         aaaTAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGt                                 <  1:1054866/53‑1 (MQ=255)

                                                         aaaTAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGt                                 <  1:2167776/53‑1 (MQ=255)

                                                          aaTAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGCCGa              <  1:3264120/71‑1 (MQ=255)

                                                              aaGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGCCGAAGGt          <  1:3632677/71‑1 (MQ=255)

                                                                 gCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGCCGAAGGTGCt       <  1:2753723/71‑1 (MQ=255)

                                                                 gCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGCCGAAGGTGCt       >  1:1013352/1‑71 (MQ=255)

                                                                  cGAATGCCAGCACCATACCGATGGAGTAGATGGGc                                          <  1:845105/35‑1 (MQ=255)

                                                                  cGAATGCCAGCACCATACCGATGGAGTAGATGGGc                                          <  1:4654018/35‑1 (MQ=255)

                                                                  cGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGCCGAAGGTGCt       <  1:106788/70‑1 (MQ=255)

                                                                   gAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGCCGAAGGTGCTGa     <  1:3581688/71‑1 (MQ=255)

                                                                     aTGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGCCGAAGGTGCTGAt    <  1:602494/70‑1 (MQ=255)

                                                                     aTGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGCCGAAGGTGCTGAt    <  1:1477149/70‑1 (MQ=255)

                                                                     aTGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGCCGAAGGTGCTGATa   <  1:963164/71‑1 (MQ=255)

                                                                      tGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCg                       >  1:4065403/1‑50 (MQ=255)

                                                                      tGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGCCGAAGGTGCTGATAg  >  1:2862849/1‑71 (MQ=255)

CATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGTGCTGCCGAAGGTGCTGATAG  >  Exported/2562756‑2562896

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`