Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	AP009048	3,704,874	C→T	8.2%	M164I (ATG→ATA)	trkD ←	potassium transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	AP009048	3,704,874	0	C	T	8.2%	187.5 / 5.9	61	M164I (ATG→ATA)	trkD	potassium transporter
Reads supporting (aligned to +/- strand):  ref base C (31/24);  new base T (2/3);  total (33/28)
Fisher's exact test for biased strand distribution p-value = 6.49e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.97e-01

CGTAACCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGAACTATCCAG  >  AP009048/3704809‑3704943                                                                  |                                                                      cGTAACCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGc                                                                  >  1:758906/1‑71 (MQ=255)  gTAACCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGcc                                                                 >  1:4298077/1‑71 (MQ=255)    aaCCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCa                                                                      >  1:956468/1‑64 (MQ=255)     aCCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTg                                                              >  1:1269624/1‑71 (MQ=255)      ccccAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGc                                                             <  1:1539361/71‑1 (MQ=255)      ccccAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGc                                                             >  1:1715639/1‑71 (MQ=255)       cccAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACTATAGCCGTGc                                                             >  1:4077933/1‑70 (MQ=255)       cccAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCAt                                                                     <  1:549755/62‑1 (MQ=255)       cccAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGcc                                                            <  1:501002/71‑1 (MQ=255)        ccAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCa                                                           >  1:1248491/1‑71 (MQ=255)         cAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCa                                                                      >  1:369523/1‑59 (MQ=255)          aGTCCTGGCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATg                                                         >  1:1617717/1‑71 (MQ=255)          aGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATg                                                         >  1:4531762/1‑71 (MQ=255)           gTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGt                                                        <  1:705061/71‑1 (MQ=255)            tCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGc                                                                  <  1:2111264/60‑1 (MQ=255)              cTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGtttt                                                     >  1:1431884/1‑71 (MQ=255)              cTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGtttt                                                     >  1:2984645/1‑71 (MQ=255)              cTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGttt                                                      <  1:3707284/70‑1 (MQ=255)              cTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGttt                                                      <  1:3862853/70‑1 (MQ=255)                gCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGttttt                                                    >  1:407310/1‑70 (MQ=255)                  cAGTATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGaa                                                 <  1:2598187/71‑1 (MQ=255)                  cAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGaa                                                 >  1:1425902/1‑71 (MQ=255)                    gAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAAt                                                >  1:4130961/1‑70 (MQ=255)                      aTCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACTATAGcc                                                                 >  1:3041539/1‑51 (MQ=255)                         aaaaaCCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTg                                                   >  1:3951291/1‑62 (MQ=255)                         aaaaaCCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTg                                                   >  1:697672/1‑62 (MQ=255)                           aaaCCAGGTCAGCATGATTGGCGCAAACAGCTTACCGAcc                                                                       >  1:3553484/1‑40 (MQ=255)                            aaCCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCa                                              <  1:1847125/64‑1 (MQ=255)                               cAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAataata                                     >  1:1023219/1‑70 (MQ=255)                                aGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATaaa                                   <  1:4213770/71‑1 (MQ=255)                                 ggTCAGCATGATCGGCGCAAACAGCTTACCGAACATAGcc                                                                 >  1:2934886/1‑40 (MQ=255)                                    cAGCATGATCGGCGCAAACAGCTTACCGACCATAGc                                                                  >  1:926279/1‑36 (MQ=255)                                      gCATGATCGGCGCAAACAGCTTACCGACAATAGCCGTGCCATGTTTTTGAATCata                                            <  1:190219/56‑1 (MQ=255)                                        aTGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGttttt                                                    >  1:4091113/1‑46 (MQ=255)                                         tGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGttt                                                      <  1:441068/43‑1 (MQ=255)                                           aTCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAataata                                     >  1:3241155/1‑58 (MQ=255)                                           aTCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGa                         <  1:373022/70‑1 (MQ=255)                                           aTCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGa                         >  1:2774986/1‑70 (MQ=255)                                           aTCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGAt                        <  1:2897195/71‑1 (MQ=255)                                           aTCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGAt                        <  1:2084813/71‑1 (MQ=255)                                            tCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGt                                 >  1:202841/1‑61 (MQ=255)                                            tCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGa                         >  1:3444053/1‑69 (MQ=255)                                            tCGGCACAAACAGCTTACCGACCATAGCCGTGCCAt                                                          >  1:2731470/1‑36 (MQ=255)                                             cGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCat                                             >  1:462273/1‑48 (MQ=255)                                              ggCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATaa                      <  1:2260386/70‑1 (MQ=255)                                                cgcAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTg                   <  1:425260/71‑1 (MQ=255)                                                  cAAACAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTgag                              <  1:3651111/58‑1 (MQ=255)                                                  cAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTgag                 <  1:2752242/71‑1 (MQ=255)                                                   aaaCAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAAtt                    <  1:3697572/67‑1 (MQ=255)                                                   aaaCAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAAtt                    <  1:4283301/67‑1 (MQ=255)                                                   aaaCAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTga                  >  1:772914/1‑69 (MQ=255)                                                    aaCAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTgag                 <  1:4557673/69‑1 (MQ=255)                                                     aCAGCTTACCGCCCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAgg              >  1:1852334/1‑71 (MQ=255)                                                      cAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATc                                               <  1:96894/37‑1 (MQ=255)                                                      cAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAgg              <  1:4333550/70‑1 (MQ=255)                                                       aGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCaaaaat                                         >  1:453324/1‑42 (MQ=255)                                                        gCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTga                  <  1:994714/64‑1 (MQ=255)                                                        gCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAgggg            >  1:4345856/1‑70 (MQ=255)                                                         cTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGaa          >  1:3312093/1‑71 (MQ=255)                                                            aCCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGt                                 <  1:3503466/45‑1 (MQ=255)                                                               gACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGAACTATcc    <  1:3953550/71‑1 (MQ=255)                                                               gACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGAACTATcc    <  1:3871387/71‑1 (MQ=255)                                                                 ccATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGAACTATCCAg  >  1:1562608/1‑71 (MQ=255)                                                                  |                                                                      CGTAACCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGAACTATCCAG  >  AP009048/3704809‑3704943

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: ‑