BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	Exported	2,562,739	C→T	14.1%	S446S (TCG→TCA)	lldP ←	L‑lactate permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	Exported	2,562,739	0	C	T	14.1%	267.0 / 27.0	106	S446S (TCG→TCA)	lldP	L‑lactate permease
Reads supporting (aligned to +/- strand): ref base C (36/55); new base T (10/5); total (46/60)
Fisher's exact test for biased strand distribution p-value = 8.90e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 107 total aligned reads displayed.

CGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAAT  >  Exported/2562672‑2562806

cggcgAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCg                                                                    <  1:5575591/69‑1 (MQ=255)

  gcgAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGagaa                                                                <  1:2752940/71‑1 (MQ=255)

    gAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGagaaga                                                              <  1:699560/71‑1 (MQ=255)

     aaCAGGGCGTTAGAGGAGGTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACGGTGAgaagaa                                                             <  1:1830777/71‑1 (MQ=255)

     aaCAGGGCGTTAGAGGAGGTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACGGTGAgaagaa                                                             <  1:1829411/71‑1 (MQ=255)

      aCAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGaagaag                                                            >  1:3731184/1‑71 (MQ=255)

      aCAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGaagaag                                                            >  1:170310/1‑71 (MQ=255)

        aGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGt                                                          <  1:4194809/71‑1 (MQ=255)

        aGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGt                                                          <  1:1533219/71‑1 (MQ=255)

        aGGGCGTTAGAGGAGGTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACGGTGAgaagaa                                                             >  1:1320443/1‑68 (MQ=255)

         gggCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTg                                                         <  1:3965777/71‑1 (MQ=255)

         gggCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTg                                                         <  1:260290/71‑1 (MQ=255)

         gggCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCACCAGCCAGCCGAGGAACGGCGagaaga                                                              <  1:4815674/66‑1 (MQ=255)

           gCGTTAGAGGAGGTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACGGTGAGAAGAACGGGaa                                                       >  1:4260842/1‑71 (MQ=255)

           gCGTTAGAGGAGGTGTCCGAGCCGCTAAGCAATACGCCCAGCCAGCCGAGAAACGGTGAGAAGAACGGGaa                                                       >  1:3230097/1‑71 (MQ=255)

              ttAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGagaag                                                               <  1:5207988/60‑1 (MQ=255)

              ttAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAAt                                                      <  1:3331589/69‑1 (MQ=255)

              ttAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAAt                                                      <  1:5457942/69‑1 (MQ=255)

                aGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCAt                                                  >  1:3162993/1‑71 (MQ=255)

                   tGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGa                                                <  1:1856228/70‑1 (MQ=255)

                    gAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGAcc                                              >  1:2169980/1‑71 (MQ=255)

                     aGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGt                                                          <  1:3951219/58‑1 (MQ=255)

                      ggTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACGGTGagaa                                                                >  1:5360147/1‑51 (MQ=19)

                          tCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGTGagaag                                                               >  1:3513565/1‑48 (MQ=255)

                          tCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGagaag                                                               >  1:140899/1‑48 (MQ=255)

                            cGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACGGTGAGAAGAACGGGaac                                                      >  1:1739630/1‑54 (MQ=255)

                             gACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTgcgc                                     <  1:4141274/71‑1 (MQ=255)

                             gACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTgcgc                                     <  1:2298358/71‑1 (MQ=255)

                             gACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTgcgc                                     <  1:2511757/71‑1 (MQ=255)

                              aCCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGcc                                    <  1:3007749/71‑1 (MQ=255)

                               cccGGTCAGGAATACCCCCAGCCAGACGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCa                                   <  1:4808242/71‑1 (MQ=255)

                                   gTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATg                                                     <  1:274018/49‑1 (MQ=255)

                                   gTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCa                                   <  1:2022168/67‑1 (MQ=255)

                                   gTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGc                               <  1:813294/71‑1 (MQ=255)

                                     cAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGt                                 >  1:2502727/1‑67 (MQ=255)

                                     cAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGt                                 >  1:4962244/1‑67 (MQ=255)

                                     cAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGt                                 >  1:5265785/1‑67 (MQ=255)

                                     aaGGAATACGCCCAGCCAGCCGAGAAACGGTGagaaga                                                              >  1:5273705/2‑38 (MQ=21)

                                      aGGAATACGCCCAGCCAGCCGAGAAACGGTGagaaga                                                              >  1:3669812/1‑37 (MQ=25)

                                      aGGAATACGCCCAGCCAGCCGAGAAACGGTGagaaga                                                              >  1:4663760/1‑37 (MQ=25)

                                      aGGAATACGCCCAGCCAGCCGAGAAACGGTGagaaga                                                              >  1:3549661/1‑37 (MQ=25)

                                       ggAATACGCCCAGCCAGCCGAGAAACGGTGagaag                                                               <  1:3911580/35‑1 (MQ=21)

                                       ggAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCAAGTGCCAgc                           >  1:820881/1‑71 (MQ=255)

                                        gAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGcc                                    <  1:912513/61‑1 (MQ=255)

                                         aaTACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCa                                   <  1:1851296/61‑1 (MQ=255)

                                         aaTACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGc                               <  1:4579725/65‑1 (MQ=255)

                                         aaTACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGc                               <  1:4916532/65‑1 (MQ=255)

                                         aaTACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGc                               <  1:813052/65‑1 (MQ=255)

                                          aTACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGAc                                               >  1:5112987/1‑48 (MQ=255)

                                          aTACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGcc                        <  1:306401/71‑1 (MQ=255)

                                           tACGCCCAGCCAGCCGAGAAACGGTGAGAAGAACGGGaa                                                       <  1:802741/39‑1 (MQ=16)

                                           tACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTg                                                         <  1:1308663/37‑1 (MQ=255)

                                           tACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTgcgc                                     <  1:578560/57‑1 (MQ=255)

                                           tACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTgcgc                                     <  1:923332/57‑1 (MQ=255)

                                           tACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAgcgc                         >  1:1001235/1‑69 (MQ=255)

                                           tACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAgcgc                         >  1:5560770/1‑69 (MQ=255)

                                             cccccAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCa                                   >  1:5599825/1‑57 (MQ=255)

                                              ccccAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAgcgc                         <  1:1302933/66‑1 (MQ=255)

                                                ccagccagCCGAGGAACGGCGAGAAGAAGGTGAATGCa                                                   >  1:106915/1‑38 (MQ=255)

                                                ccagccagCCGAGGAACGGCGAGAAGAAGGTGAATGCa                                                   >  1:1229053/1‑38 (MQ=255)

                                                ccagccagCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAg                                  >  1:1079552/1‑55 (MQ=255)

                                                ccagccagCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGt                                 >  1:555489/1‑56 (MQ=255)

                                                ccagccagCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTg                                >  1:1862425/1‑57 (MQ=255)

                                                ccagccagCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGtt                  <  1:5148250/71‑1 (MQ=255)

                                                ccagccagCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGtt                  <  1:2558007/71‑1 (MQ=255)

                                                 cagccagcCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCa                                   <  1:2182636/53‑1 (MQ=255)

                                                 cagccagcCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGtt                  >  1:4552243/1‑70 (MQ=255)

                                                 cagccagcCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGtt                  >  1:4914321/1‑70 (MQ=255)

                                                 cagccagcCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGtt                  >  1:5220691/1‑70 (MQ=255)

                                                    ccagccGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGtt                  <  1:3007529/67‑1 (MQ=255)

                                                    ccagccGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTtgat               >  1:3048281/1‑70 (MQ=255)

                                                    ccagccGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTtgat               >  1:5356351/1‑70 (MQ=255)

                                                    ccagccGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTtgat               >  1:3694618/1‑70 (MQ=255)

                                                     cagccGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTtgatga             >  1:3207927/1‑71 (MQ=255)

                                                     cagccGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTtgatga             <  1:3350138/71‑1 (MQ=255)

                                                     cagccGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTtgatg              <  1:1558803/70‑1 (MQ=255)

                                                     cagccGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTtgatg              <  1:5118957/70‑1 (MQ=255)

                                                      agccGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAg                      <  1:4301423/61‑1 (MQ=255)

                                                       gccGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTtgatga             >  1:2091311/1‑69 (MQ=255)

                                                        ccGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGc                               <  1:1453931/50‑1 (MQ=255)

                                                         cGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGt         >  1:1914376/1‑71 (MQ=255)

                                                          gAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTc        >  1:4456498/1‑71 (MQ=255)

                                                            ggAACGGCGAGAAGAAGCTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAgtg                    >  1:3937947/1‑57 (MQ=255)

                                                             gAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGcc                                    <  1:822002/40‑1 (MQ=255)

                                                             gAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGcc                                    <  1:1177604/40‑1 (MQ=255)

                                                             gAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGcc                                    <  1:5023028/40‑1 (MQ=255)

                                                             gAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCGAGTGTTGATGACAGTCCg      >  1:1519842/1‑70 (MQ=255)

                                                             gAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCgg     <  1:5551658/71‑1 (MQ=255)

                                                             gAACGGCGAGAAGAAGGTGAATGCATGACCGGTGGGCGcc                                    <  1:4455938/40‑1 (MQ=255)

                                                              aaCGGCGAGAAGAAGGTTAATGCATGACCGGTGTGCGCCAGTGCCAGCGcc                        <  1:4233128/51‑1 (MQ=255)

                                                              aaCGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGcc                        <  1:4593652/51‑1 (MQ=255)

                                                              aaCGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGcc                        <  1:2886405/51‑1 (MQ=255)

                                                              aaCGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGcc                        <  1:2677076/51‑1 (MQ=255)

                                                               aCGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGaa   <  1:1743839/71‑1 (MQ=255)

                                                               aCGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGaa   >  1:3912729/1‑71 (MQ=255)

                                                               aCGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGaa   <  1:1619930/71‑1 (MQ=255)

                                                                cGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAg                      >  1:1150994/1‑51 (MQ=255)

                                                                cGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAg                      >  1:1157908/1‑51 (MQ=255)

                                                                cGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAAt  <  1:4564681/71‑1 (MQ=255)

                                                                   cGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGcc                        <  1:2796350/46‑1 (MQ=255)

CGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAAT  >  Exported/2562672‑2562806

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: `‑`