BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	W3110S.gb	45,813	C→T	78.6%	P3S (CCG→TCG)	yaaU →	predicted transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	45,813	0	C	T	78.6%	111.9 / 28.5	56	P3S (CCG→TCG)	yaaU	predicted transporter
Reads supporting (aligned to +/- strand): ref base C (8/4); new base T (22/22); total (30/26)
Fisher's exact test for biased strand distribution p-value = 3.47e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01

TTGGTTTGATACGTAACGCCGCACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAACCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCATTTTGCTGTGGGGAAGC  >  W3110S.gb/45753‑45878

ttGGTTTGATACGTAACGCCGCACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGa                                                           <  1:1553959/69‑1 (MQ=255)

ttGGTTTGATACGTAACGCCGCACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAACCGTCCAGa                                                           <  1:3060952/69‑1 (MQ=255)

ttGGTTTGATACGTAACGCCGCACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAACCGTCCAGa                                                           <  1:3564869/69‑1 (MQ=255)

  ggTTTGATACGTAACGCCGCACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGaaa                                                         <  1:1332794/69‑1 (MQ=255)

   gTTTGATACGTAACGCCGCACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAAc                                                        >  1:1221849/1‑69 (MQ=255)

             tAACGCCGCACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAACCGTCCAGAAACTTTGACGAt                                               >  1:2623884/1‑68 (MQ=255)

             tAACGCCGCACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAACCGTCCAGAAACTTTGACGAt                                               >  1:582436/1‑68 (MQ=255)

              aaCGCCGCACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGAtc                                              >  1:2875457/1‑68 (MQ=255)

                 gccgcACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCaa                                          <  1:1737370/69‑1 (MQ=255)

                 gccgcACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCaa                                          <  1:3153152/69‑1 (MQ=255)

                   cgcACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAAt                                        >  1:2418620/1‑69 (MQ=255)

                       cTGACTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGa                                                           <  1:31763/46‑1 (MQ=255)

                       cTGACTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACttt                                                     >  1:1710243/1‑52 (MQ=255)

                         gACTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAATtctc                                    <  1:3423687/67‑1 (MQ=255)

                         gACTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAATtctc                                    <  1:1887063/67‑1 (MQ=255)

                         gACTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAATtctc                                    <  1:1846796/67‑1 (MQ=255)

                          aCTCTCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCaaa                                         >  1:1766937/1‑61 (MQ=255)

                          aCTCTCATTGCAAAAAACAGGAATAACCATGCAACCGTCCAGAAACTTTGACGATCTCAAAt                                        <  1:1934939/62‑1 (MQ=255)

                           ctctCATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCctct                                >  1:3318345/1‑69 (MQ=255)

                            tctcATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTa                               <  1:835938/69‑1 (MQ=255)

                            tctcATTGCAAAAAACAGGAATAACCATGCAACCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTa                               <  1:1496959/69‑1 (MQ=255)

                              tcATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGa                                                           <  1:495525/39‑1 (MQ=255)

                              tcATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGa                                                           <  1:2534144/39‑1 (MQ=255)

                              tcATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACg                                                 >  1:3639717/1‑49 (MQ=255)

                              tcATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACg                                                 >  1:1099761/1‑49 (MQ=255)

                              tcATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACg                                                 >  1:719046/1‑49 (MQ=255)

                              tcATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACg                                                 >  1:2095218/1‑49 (MQ=255)

                              tcATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACg                                                 >  1:2145209/1‑49 (MQ=255)

                              tcATTGCAAAAAACAGGAATAAACATGCAATCGTCAAGAAAc                                                        >  1:3316897/1‑42 (MQ=37)

                               cATTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTc                            >  1:3422584/1‑69 (MQ=255)

                                aTTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGAc                                                  <  1:3461637/46‑1 (MQ=255)

                                aTTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGAc                                                  <  1:2117323/46‑1 (MQ=255)

                                aTTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGAc                                                  <  1:606928/46‑1 (MQ=255)

                                aTTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGAc                                                  <  1:2384911/46‑1 (MQ=255)

                                aTTGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCa                           >  1:502535/1‑69 (MQ=255)

                                  tGCAAAAAACAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTc                            <  1:3309368/66‑1 (MQ=255)

                                    cAAAAAACAGGAATAACCATGCAACCGT‑CAGAAAc                                                        >  1:284838/1‑35 (MQ=38)

                                     aaaaaaCAGGAATAACCATGCAACCGTCCAGAAACTTTGACGATCTCAAATTCTCctct                                >  1:3029581/1‑59 (MQ=255)

                                     aaaaaaCAGGAATAACCATGCAACCGTCCAGAAACTTTGACGATCTCAAATTCTCctct                                >  1:969648/1‑59 (MQ=255)

                                     aaaaaaCAGGAATAACCATGCAACCGTCCAGAAACTTTGACGATCTCAAATTCTCctct                                >  1:2042648/1‑59 (MQ=255)

                                         aaCAGGAATAACCATGCAATCGTCCAGAAACTTTGAc                                                  <  1:1189415/37‑1 (MQ=255)

                                         aaCAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCa                   >  1:1804088/1‑68 (MQ=255)

                                         aaCAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCAt                  <  1:1992297/69‑1 (MQ=255)

                                         aaCAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCAt                  <  1:2856899/69‑1 (MQ=255)

                                         aaCAGGAATAACCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCAt                  <  1:2926019/69‑1 (MQ=255)

                                                   aCCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCctct                                >  1:609610/1‑45 (MQ=255)

                                                   aCCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCa                           <  1:51676/50‑1 (MQ=255)

                                                   aCCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCa                           <  1:3016202/50‑1 (MQ=255)

                                                   aCCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCATTTTGCtgtg         >  1:3544427/1‑68 (MQ=255)

                                                   aCCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCATTTTGCtgtg         >  1:639618/1‑68 (MQ=255)

                                                   aCCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCATTTTGCtgtg         >  1:687831/1‑68 (MQ=255)

                                                   aCCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCATTTTGCtgtg         >  1:1000672/1‑68 (MQ=255)

                                                   aCCATGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCATTTTGCtgtg         >  1:2475764/1‑68 (MQ=255)

                                                   aCCATGCAACCGTCCAGAAACTTTGACGATCTCAAATTctcct                                  >  1:769424/1‑43 (MQ=255)

                                                      aTGCAATCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCATTTTg              >  1:2465826/1‑60 (MQ=255)

                                                         cAACCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCATTTTGCTGTGGGGAAGc  >  1:2347651/1‑69 (MQ=255)

TTGGTTTGATACGTAACGCCGCACTGACTCTCATTGCAAAAAACAGGAATAACCATGCAACCGTCCAGAAACTTTGACGATCTCAAATTCTCCTCTATTCACCGCCGCATTTTGCTGTGGGGAAGC  >  W3110S.gb/45753‑45878

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`