Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	2,021,817	C→T	76.5%	V139I (GTT→ATT)	ykhA ←	acyl‑CoA hydrolase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,021,817	0	C	T	76.5%	55.4 / 15.7	39	V139I (GTT→ATT)	ykhA	acyl‑CoA hydrolase
Reads supporting (aligned to +/- strand):  ref base C (4/5);  new base T (17/12);  total (22/17)
Fisher's exact test for biased strand distribution p-value = 7.03e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.15e-01

TCTGTCTTTATATTTTTAGTCTCTAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGTTATTAAATACATCGTCAATTCTAATTTGAACGACCAC  >  CP000730/2021686‑2021952                                                                                                                                    |                                                                                                                                        tCTGTCTTTATATTTTTAGTCTCTAATATGTTGCACTTGAGCTAAATATTCAAATGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCGGTATCATAAAACCATTTTTCAATATCAtcttc                                                                                                                                >  1:255985/1‑141 (MQ=255)  cTGTCTTTATATTTTTAGTCTCTAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCAtcttct                                                                                                                               >  1:207270/1‑141 (MQ=255)      cTTTATATTTTTAGTCTCTAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGat                                                                                                                           >  1:226626/1‑141 (MQ=255)        ttATATTTTTAGTCTCTAATATGTTGCACTTGAGCTAAATATTAAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATAATCTTCTTGatat                                                                                                                         >  1:208796/1‑141 (MQ=255)         tataTTTTTAGTCTCTAATATGTTACACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGAtata                                                                                                                        >  1:278719/1‑141 (MQ=255)               tttAGTCTCTAATATGTTTCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAg                                                                                                                  <  2:45026/141‑1 (MQ=255)                      tctAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATg                                                                                                           <  1:335481/141‑1 (MQ=255)                      tctAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTAGTTCAACACGTTGTGGTGCTGTATAATGAAACCGTTTTTCAATATCATCTTCTGGATATACACCGGGTACATg                                                                                                           >  1:244135/1‑141 (MQ=255)                       tttttatGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCATCTCGTTTTTTTTTTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATACTCCACGTACATGt                                                                                                          >  2:278265/5‑141 (MQ=255)                        tAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACAGCAGGTACATGtt                                                                                                         >  2:87595/1‑141 (MQ=255)                             tGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATCTACACCCGGTACATGTTTAGGt                                                                                                    >  1:36334/1‑141 (MQ=255)                             tGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTCTTATTCGTTCAACACGTTGTGGTGCTTTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGt                                                                                                    >  2:348884/1‑141 (MQ=255)                               ttccACTTGAGCTAAATACTCACTTGTTTGTTTACTTTCAATGCAACATCCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAAACATTTTTCAATACCATCTTCTGGATATACACCAGGTACATGTTTAGGttt                                                                                                  <  2:382940/138‑1 (MQ=255)                               ttGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGttt                                                                                                  <  2:324045/141‑1 (MQ=255)                                 gCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATACACCAGGTACATGTTTAGGtttcc                                                                                                >  2:137105/1‑139 (MQ=255)                                 gCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTATTCTTCGTTCAACGCGTTGTGGTGCTGTATCATAAAACCATTTTTTACGATCATCTTCTGGATATACACCAGGTACATGTTTAGGGTTGc                                                                                                >  2:61633/1‑141 (MQ=255)                                       gAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGATACATGGTTAGGTTTGCCTtcat                                                                                          >  2:215571/1‑141 (MQ=255)                                       gAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTtcat                                                                                          <  1:368803/141‑1 (MQ=255)                                           tAAATATTCAATTGTTTGTTTACTTCCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCatcatc                                                                                      <  2:322435/141‑1 (MQ=255)                                              attttCCATTGTTTGTTTACTTTAAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTaa                                                                                   <  2:85603/138‑1 (MQ=255)                                                        gtttgtttACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAAt                                                                         <  1:33015/141‑1 (MQ=255)                                                          ttgtttACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGt                                                                       <  1:369940/141‑1 (MQ=255)                                                           tgtttACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGtt                                                                      >  1:304113/1‑141 (MQ=255)                                                             tttACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAAGGTTaa                                                                    >  2:203181/1‑141 (MQ=255)                                                             tttACTTTCAATGCGACGTGCTTTTCTTAGTTCTACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATAAACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTaa                                                                    >  1:378467/1‑141 (MQ=255)                                                                     cAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTa                                                            <  2:14048/141‑1 (MQ=255)                                                                                   tttCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCa                                              >  1:338520/1‑141 (MQ=255)                                                                                     tcttcGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATg                                            <  2:235331/141‑1 (MQ=255)                                                                                        tcGTTCAACTCTGTGTGGTGCTGTAGCATAAAACCATTTTTCATCATTATCTTCTGGATATAATCTAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCtt                                         <  2:123709/141‑1 (MQ=255)                                                                                        tcGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCtt                                         <  2:56790/141‑1 (MQ=255)                                                                                         cGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATTCTTTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTg                                        <  1:10955/141‑1 (MQ=255)                                                                                          gTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGt                                       >  1:213320/1‑141 (MQ=255)                                                                                           ttCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGtt                                      <  1:38321/141‑1 (MQ=255)                                                                                                           gCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGTTATTAAATATATCGTCa                      >  1:113376/1‑141 (MQ=255)                                                                                                           gCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGTTATTAAATACATCGTCa                      >  1:170237/1‑141 (MQ=255)                                                                                                                        aCCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGTTCTTAAATACATCGTCAATTCTAATTTGaa         >  1:265665/1‑141 (MQ=255)                                                                                                                         ccATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGTTATTAAATACATCGTCAATTCTAATTTGAAc        <  2:343678/141‑1 (MQ=255)                                                                                                                             ttttCACTATCATCTCCGTGATATACACCAGTTACCTGGTTAGGTTTGCCCTCCTCATCTAACGCAACAAATGTTAAGTAACTTAATGCATCTAAATCATGCTTTTCATTAAATACATCGTCCATTCTAATTTGAACGAcc    <  2:192187/141‑1 (MQ=255)                                                                                                                               ttCAATATCATCGTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATAAAGCTTGATATTAAATACATCGTCAATTCTAATTTGAACGACCAc  >  2:365951/1‑141 (MQ=255)                                                                                                                                    |                                                                                                                                        TCTGTCTTTATATTTTTAGTCTCTAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGTTATTAAATACATCGTCAATTCTAATTTGAACGACCAC  >  CP000730/2021686‑2021952

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑