Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	W3110S.gb	2,580,771	C→T	7.2%	L221L (TTG→TTA)	ypfG ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	2,580,771	0	C	T	7.2%	204.7 / 4.3	69	L221L (TTG→TTA)	ypfG	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (35/29);  new base T (2/3);  total (37/32)
Fisher's exact test for biased strand distribution p-value = 6.57e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.45e-01

ACAGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGTTGCGTTC  >  W3110S.gb/2580711‑2580839                                                             |                                                                     acaGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGAt                                                               >  1:2126337/1‑68 (MQ=255) acaGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATc                                                              >  1:3338845/1‑69 (MQ=255) acaGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATc                                                              >  1:3804408/1‑69 (MQ=255)   aGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCaa                                                                    >  1:1002298/1‑61 (MQ=255)   aGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCaa                                                                    >  1:1667319/1‑61 (MQ=255)    gCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCg                                                         <  1:1433435/71‑1 (MQ=255)    gCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCg                                                         <  1:367378/71‑1 (MQ=255)     cTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGc                                                          >  1:871774/1‑69 (MQ=255)        atcatcatcAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGag                                                       <  1:3716262/69‑1 (MQ=255)         tcatcatcaGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGag                                                       <  1:3496515/68‑1 (MQ=255)          catcatcaGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCaa                                                                    <  1:3600127/54‑1 (MQ=255)          catcatcaGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCaa                                                                    <  1:3604632/54‑1 (MQ=255)           atcatcaGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAgcg                                                  >  1:428378/1‑71 (MQ=255)              atcaGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAgcg                                                  >  1:3028831/1‑68 (MQ=255)              atcaGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCa                                                <  1:738792/70‑1 (MQ=255)              atcaGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCa                                                <  1:2550042/70‑1 (MQ=255)               tcaGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAg                                               <  1:604269/70‑1 (MQ=255)                 aGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAAt                                                                   >  1:5735/1‑48 (MQ=255)                   cgcTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCAt                                          <  1:2110126/71‑1 (MQ=255)                   cgcTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCAt                                          >  1:1569593/1‑71 (MQ=255)                       ttATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCa                                       <  1:2016139/70‑1 (MQ=255)                        tATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCa                                           >  1:2274189/1‑65 (MQ=255)                        tATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCa                                           >  1:2851003/1‑65 (MQ=255)                        tATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCa                                           >  1:2773608/1‑65 (MQ=255)                        tATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCa                                           >  1:2682296/1‑65 (MQ=255)                        tATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCa                                       <  1:1585121/69‑1 (MQ=255)                        tATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATc                                     >  1:1984104/1‑71 (MQ=255)                        tATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATc                                     >  1:2672749/1‑71 (MQ=255)                            atcaGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGcc                                 <  1:2305219/71‑1 (MQ=255)                            atcaGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGc                                  <  1:3847137/70‑1 (MQ=255)                              cggtcagCGCAGTGACATTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAg                               >  1:249505/3‑71 (MQ=255)                              cggtcagCGCAGTGACATTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAg                               >  1:3171396/3‑71 (MQ=255)                               agtcagCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGt                              >  1:2541170/1‑71 (MQ=255)                               agtcagCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGt                              >  1:1145971/1‑71 (MQ=255)                               agtcagCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGt                              >  1:3265521/1‑71 (MQ=255)                                   agCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTc                           >  1:2720494/1‑70 (MQ=255)                                     cgcAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCa                         >  1:744315/1‑70 (MQ=255)                                      gcAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGAcc                                            >  1:3031091/1‑50 (MQ=255)                                       cAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTc                                        <  1:1932723/53‑1 (MQ=255)                                       cAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTc                                        <  1:384118/53‑1 (MQ=255)                                         gTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATc                    <  1:1533967/71‑1 (MQ=255)                                            aCATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAg                 >  1:704792/1‑71 (MQ=255)                                              aTTCACATCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCa               <  1:2896136/71‑1 (MQ=255)                                                tCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCa                                           >  1:2302941/1‑41 (MQ=255)                                                tCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCa                                           >  1:3541584/1‑41 (MQ=255)                                                   ccTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCg          <  1:3187915/71‑1 (MQ=255)                                                   ccTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCg          <  1:1148251/71‑1 (MQ=255)                                                   ccTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCaaa             <  1:444698/68‑1 (MQ=255)                                                   ccTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCaaa             <  1:1049669/68‑1 (MQ=255)                                                   ccTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCaaa             <  1:2956584/68‑1 (MQ=255)                                                   ccTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCaaa             <  1:2180877/68‑1 (MQ=255)                                                    cTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCg          <  1:3175516/70‑1 (MQ=255)                                                     taacgacgCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATc           >  1:2001764/3‑68 (MQ=255)                                                     tCACGACGCAATGGATCAAGCGAGCAGCGCAGACCAt                                          <  1:1281671/37‑1 (MQ=255)                                                     tCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGtt                             <  1:1990421/50‑1 (MQ=255)                                                     tCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGtt                             <  1:444001/50‑1 (MQ=255)                                                     tCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGtt                             <  1:2325091/50‑1 (MQ=255)                                                      cACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCAt                                      >  1:771501/1‑40 (MQ=255)                                                      cACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATc                    >  1:2632876/1‑58 (MQ=255)                                                       acgacgCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCg                                   >  1:3568807/1‑42 (MQ=255)                                                       acgacgCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAg                 >  1:884937/1‑60 (MQ=255)                                                       acgacgCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGtt        <  1:710860/69‑1 (MQ=255)                                                       acgacgCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGtt        >  1:815199/1‑69 (MQ=255)                                                       aagacgCAATGGATCAAGCGAGCAGCGCAGACCATTCATCAGCCAGTTTCCATAATCCAGCAAATCGtt        >  1:1081997/3‑69 (MQ=255)                                                        cgacgCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGTTGCg     <  1:3647472/71‑1 (MQ=255)                                                         gacgCAATGGATCAAGCGAGCAGCGCAGACCATTc                                        >  1:2500826/1‑35 (MQ=255)                                                         gacgCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGTTGCGt    <  1:1551457/71‑1 (MQ=255)                                                           cgCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGTTGCGttc  >  1:2846295/1‑71 (MQ=255)                                                           cgCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGTTGCGttc  >  1:2942855/1‑71 (MQ=255)                                                             |                                                                     ACAGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGTTGCGTTC  >  W3110S.gb/2580711‑2580839

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: ‑