Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,485,005	C→T	13.1%	D279N (GAT→AAT)	menF ←	isochorismate synthase 2

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,485,005	0	C	T	13.1%	100.7 / 7.2	38	D279N (GAT→AAT)	menF	isochorismate synthase 2
Reads supporting (aligned to +/- strand):  ref base C (13/20);  new base T (3/2);  total (16/22)
Fisher's exact test for biased strand distribution p-value = 6.32e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01

GGTATCGGCCTGTAATCGTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGCTACTGTTCCCGC  >  minE/1484940‑1485074                                                                  |                                                                      ggTATCGGCCTGTAATCGTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTtattat                                                                     <  1:1351407/68‑1 (MQ=255)          cTGTAATCGTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGc                                                          >  1:820413/1‑70 (MQ=255)             tAATCGTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATTCGCCAt                                                              <  1:1045172/63‑1 (MQ=255)             tAATCGTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCa                                                        >  1:2045107/1‑69 (MQ=255)             tAATCGTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCa                                                        <  1:1474725/69‑1 (MQ=255)             tAATCGTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCAct                                                      >  1:992015/1‑71 (MQ=255)             tAATCGTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCAc                                                       <  1:666113/70‑1 (MQ=255)              aaTCGTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCActc                                                     >  1:457612/1‑71 (MQ=255)               aTCGTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATTATCCGCCATCAGCCActc                                                     <  1:1764704/70‑1 (MQ=255)               aTCGTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCActct                                                    >  1:1038624/1‑71 (MQ=255)                  gTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCAt                                                              >  1:526381/1‑58 (MQ=255)                  gTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCa                                                        >  1:322922/1‑64 (MQ=255)                  gTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCACTCTcc                                                  >  1:1032334/1‑70 (MQ=255)                         gATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAActgct                                          <  1:295885/71‑1 (MQ=255)                          atatCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATTATCCGCCATCAGCCACTCTCCTAActgct                                          >  1:1397018/1‑70 (MQ=255)                              cTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCActc                                                     <  1:2032708/55‑1 (MQ=255)                               ttCCACCACCAGCATGTTCTCGCGCTGGTTTTTATTATCCGCCATCAGCCACTCTCCTAACTGCTgcgc                                      >  1:256430/1‑69 (MQ=255)                               ttCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCa                                                            <  1:867868/47‑1 (MQ=255)                               ttCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCa                                                            <  1:2128701/47‑1 (MQ=255)                                  caccaccaGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCt                                 <  1:1437190/71‑1 (MQ=255)                                   accaccaGCATGTTCTCGCGCTGGTTTTTATTATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTg                                   <  1:188863/68‑1 (MQ=255)                                   accaccaGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCtt                                <  1:1701656/71‑1 (MQ=255)                                    ccaccaGCATGTTCTCGCGCTGGTTTTTATTATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTa                               >  1:834201/1‑71 (MQ=255)                                      accaGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTatc                             <  1:1439075/71‑1 (MQ=255)                                       ccaGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCtt                                <  1:674696/67‑1 (MQ=255)                                       ccaGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCtt                                <  1:552990/67‑1 (MQ=255)                                          gCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCa                                                        >  1:2180111/1‑40 (MQ=255)                                          gCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCa                                                        >  1:821661/1‑40 (MQ=255)                                          gCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTatcat                           >  1:2141890/1‑69 (MQ=255)                                                    gcgcTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTAttt                >  1:2204261/1‑70 (MQ=255)                                                     cgcTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGc              <  1:37341/71‑1 (MQ=255)                                                     cgcTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGc              <  1:1356296/71‑1 (MQ=255)                                                      gcTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGc              <  1:1398842/70‑1 (MQ=255)                                                          gTTTTTATCATCCGCCATCATCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGCTa            <  1:1604728/68‑1 (MQ=255)                                                          gTTTTTATCATCCGCCATCAGCCACTCTCCTAActgctg                                         >  1:666334/1‑39 (MQ=255)                                                          gTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGCTa            <  1:1602269/68‑1 (MQ=255)                                                          gTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGCTACTg         <  1:1339384/71‑1 (MQ=255)                                                          gTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGCTACTg         <  1:1269959/71‑1 (MQ=255)                                                          gTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGCTACTg         <  1:1464918/71‑1 (MQ=255)                                                                atcatcCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGCTACTGTTccc    >  1:783844/1‑70 (MQ=255)                                                                atcatcCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGCTACTGTTCCCg   >  1:225522/1‑71 (MQ=255)                                                                 tcatcCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGCTACTGTTCCCGc  <  1:59986/71‑1 (MQ=255)                                                                  |                                                                      GGTATCGGCCTGTAATCGTTGACAGATATCTTCCACCACCAGCATGTTCTCGCGCTGGTTTTTATCATCCGCCATCAGCCACTCTCCTAACTGCTGCGCCTGCTTATCATCAGGATTATTTGCTACTGTTCCCGC  >  minE/1484940‑1485074

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: ‑