Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	2,967,032	T→C	17.9%	H380H (CAT→CAC)	deoB →	phosphopentomutase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,967,032	0	T	C	17.9%	155.0 / 21.8	100	H380H (CAT→CAC)	deoB	phosphopentomutase
Reads supporting (aligned to +/- strand):  ref base T (22/60);  new base C (6/12);  total (28/72)
Fisher's exact test for biased strand distribution p-value = 5.73e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01

AACACATTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATGGAA  >  minE/2966977‑2967095                                                        |                                                                aaCACATTCCGGTACTGGTTTACGGCCCGAAAGTAAAACCGGGTTCACTGGGTCACCGTGAAACCt                                                       >  1:2066936/1‑66 (MQ=255) aaCACATTCCGGTACTGGTTTACGGCCCGAAAGTAAAACCGGGTTCACTGGGTCACCGTGAAACCTTcg                                                    >  1:3019642/1‑69 (MQ=255) aaCACATTCCGGTACTGGTTTACGGCCCGAAAGTAAAACCGGGTTCACTGGGTCACCGTGAAACCTTcg                                                    >  1:2474907/1‑69 (MQ=255) aaCACATTCCGGTACTGGTTTACGGCCCGAAAGTAAAACCGGGTTCACTGGGTCACCGTGAAACCTTcg                                                    >  1:784208/1‑69 (MQ=255) aaCACATTCCGGTACTGGTTTACGGCCCGAAAGTAAAACCGGGTTCACTGGGTCACCGTGAAACCTTcg                                                    >  1:2322055/1‑69 (MQ=255) aaCACATTCCGGTACTGGTTTACGGCCCGAAAGTAAAACCGGGTTCACTGGGTCACCGTGAAACCTTcg                                                    >  1:2603156/1‑69 (MQ=255) aaCACATTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTcg                                                    >  1:572533/1‑69 (MQ=255)   cacaTTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTcgcg                                                  <  1:3282119/69‑1 (MQ=255)   cacaTTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTcgcg                                                  <  1:813718/69‑1 (MQ=255)   cacaTTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTcgcg                                                  <  1:294595/69‑1 (MQ=255)   cacaTTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTcgcg                                                  <  1:2064200/69‑1 (MQ=255)   cacaTTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTcgcg                                                  <  1:1041005/69‑1 (MQ=255)   cacaTTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTcgcg                                                  <  1:374158/69‑1 (MQ=255)   cacaTTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTcgcg                                                  <  1:1245546/69‑1 (MQ=255)   cacaTTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTcgcg                                                  <  1:1307839/69‑1 (MQ=255)      aTTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGat                                               <  1:222107/69‑1 (MQ=255)      aTTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGat                                               <  1:742809/69‑1 (MQ=255)      aTTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGat                                               <  1:2792554/69‑1 (MQ=255)      aTTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGat                                               <  1:1334358/69‑1 (MQ=255)       ttCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGat                                               <  1:2734552/68‑1 (MQ=255)       ttCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGat                                               <  1:1933819/68‑1 (MQ=255)         ccGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATc                                            >  1:385968/1‑69 (MQ=255)         ccGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATc                                            >  1:1544630/1‑69 (MQ=255)         ccGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATc                                            >  1:1630622/1‑69 (MQ=255)         ccGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATc                                            >  1:755878/1‑69 (MQ=255)         ccGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATc                                            >  1:3007452/1‑69 (MQ=255)                  gTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAct                                   >  1:3234915/1‑69 (MQ=255)                  gTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAct                                   >  1:3261606/1‑69 (MQ=255)                    atatGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGActct                                 >  1:3176659/1‑69 (MQ=255)                    atatGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGActct                                 >  1:2198776/1‑69 (MQ=255)                    atatGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGActct                                 >  1:660042/1‑69 (MQ=255)                    atatGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGActct                                 >  1:2444180/1‑69 (MQ=255)                      atGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTg                                >  1:1583355/1‑68 (MQ=255)                      atGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTg                                >  1:1477851/1‑68 (MQ=255)                      atGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTg                                >  1:789446/1‑68 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCg                                                               >  1:2856872/1‑36 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:3133194/63‑1 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:313876/63‑1 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:2905346/63‑1 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:1011463/63‑1 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:603852/63‑1 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:2769223/63‑1 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:676824/63‑1 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:1524735/63‑1 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:2349171/63‑1 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:1912817/63‑1 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:1451166/63‑1 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:1935322/63‑1 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTgg                               >  1:1649992/1‑68 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTgg                               >  1:629928/1‑68 (MQ=255)                       tGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTgg                               >  1:2821221/1‑68 (MQ=255)                           ccGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCaaaa                          <  1:3372396/69‑1 (MQ=255)                           ccGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCaaaa                          <  1:3368937/69‑1 (MQ=255)                           ccGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCaaaa                          <  1:2054884/69‑1 (MQ=255)                            cGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCaaaa                          <  1:1379048/68‑1 (MQ=255)                                aGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATAttt                     >  1:1262938/1‑69 (MQ=255)                                aGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATAttt                     >  1:3323486/1‑69 (MQ=255)                                aGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATAttt                     >  1:429767/1‑69 (MQ=255)                                   aaaaCCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTgg                  <  1:151951/69‑1 (MQ=255)                                   aaaaCCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTgg                  <  1:62836/69‑1 (MQ=255)                                   aaaaCCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTgg                  <  1:2593740/69‑1 (MQ=255)                                   aaaaCCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTgg                  <  1:2708284/69‑1 (MQ=255)                                   aaaaCCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTgg                  <  1:2954647/69‑1 (MQ=255)                                   aaaaCCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTgg                  <  1:2206464/69‑1 (MQ=255)                                     aaCCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGat                                               <  1:81491/38‑1 (MQ=255)                                        cGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:2092664/46‑1 (MQ=255)                                            cTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGa         <  1:697200/69‑1 (MQ=255)                                            cTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGa         <  1:2752668/69‑1 (MQ=255)                                             tCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGa         <  1:969531/68‑1 (MQ=255)                                              cACTGGGTCACCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGata       <  1:168513/69‑1 (MQ=255)                                              cACTGGGTCACCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGata       <  1:897320/69‑1 (MQ=255)                                              cACTGGGTCACCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGata       <  1:1003101/69‑1 (MQ=255)                                              cACTGGGTCACCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGata       <  1:1331404/69‑1 (MQ=255)                                              cACTGGGTCACCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGata       <  1:66914/69‑1 (MQ=255)                                              cACTGGGTCACCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGata       <  1:1378224/69‑1 (MQ=255)                                              cACTGGGTCACCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGata       <  1:445547/69‑1 (MQ=255)                                              cACTGGGTCACCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGata       <  1:3109931/69‑1 (MQ=255)                                              cACTGGGTCACCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGata       <  1:1684402/69‑1 (MQ=255)                                              cACTGGGTCACCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGata       <  1:303556/69‑1 (MQ=255)                                              cACTGGGTCACCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGata       <  1:3028413/69‑1 (MQ=255)                                              cACTGGGTCACCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGata       <  1:3427781/69‑1 (MQ=255)                                                 tGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATgg    <  1:849985/69‑1 (MQ=255)                                                 tGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATgg    <  1:551710/69‑1 (MQ=255)                                                 tGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATgg    <  1:1421356/69‑1 (MQ=255)                                                 tGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATgg    <  1:3187552/69‑1 (MQ=255)                                                 tGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATgg    <  1:3288560/69‑1 (MQ=255)                                                 tGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATgg    <  1:794203/69‑1 (MQ=255)                                                 tGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATgg    <  1:3189995/69‑1 (MQ=255)                                                 tGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATgg    <  1:1179517/69‑1 (MQ=255)                                                  gggTCATCGTGAAACCTTCGCGGATATCGGCCAGAc                                    <  1:1561798/36‑1 (MQ=255)                                                     tCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATGGaa  <  1:1619781/67‑1 (MQ=255)                                                     tCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATGGaa  <  1:1104125/67‑1 (MQ=255)                                                     tCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATGGaa  <  1:1246945/67‑1 (MQ=255)                                                     tCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATGGaa  <  1:3368377/67‑1 (MQ=255)                                                     tCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATGGaa  <  1:529911/67‑1 (MQ=255)                                                     tCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATGGaa  <  1:2060459/67‑1 (MQ=255)                                                     tCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATGGaa  <  1:2331939/67‑1 (MQ=255)                                                     tCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATGGaa  <  1:2874474/67‑1 (MQ=255)                                                     gcATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATGGaa  <  1:243975/66‑1 (MQ=255)                                                      cATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATGGaa  <  1:2350417/66‑1 (MQ=255)                                                        |                                                                AACACATTCCGGTACTGGTATATGGCCCGAAAGTAAAACCGGGCTCACTGGGTCATCGTGAAACCTTCGCGGATATCGGCCAGACTCTGGCAAAATATTTTGGTACTTCTGATATGGAA  >  minE/2966977‑2967095

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: ‑