Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP006881	2,187,277	A→C	A317A (GCT→GCG)	U712_10960 ←	Prephenate dehydrogenase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006881	2,187,277	0	A	C	97.0%	205.3 / NA	66	A317A (GCT→GCG)	U712_10960	Prephenate dehydrogenase
Reads supporting (aligned to +/- strand):  ref base A (2/0);  new base C (33/31);  total (35/31)
Fisher's exact test for biased strand distribution p-value = 4.94e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CTTCAATGCATTGTTCTGCCCGTTTGCGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCTTCTCGTGTTTCAATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATAGCCGTTATCTCGGAAATCACACCGGGATGATCGGGAACATCCACATATAAATCGTAAAATGCAGGTATCGCGCCCTTCTGCCGAAGCGGCAGTCCGTCGCGATAATCCTTGGCCGTTTTAAAATAACGAAATAGA  >  CP006881/2187147‑2187412                                                                                                                                   |                                                                                                                                        cTTCAATGCATTGTTCTGCCCGTTTGCGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCGCCGCAGCTAAGATCGCTGTTAt                                                                                                                                 <  2:237180/139‑1 (MQ=255)      aTGCATTGTTCTGCCCTTTTGCGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCgg                                                                                                                            <  4:205878/139‑1 (MQ=255)                 tGCCCTTTTGTGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACAccc                                                                                                                 >  7:103474/1‑138 (MQ=255)                 tGCCCTTTTGCGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATTCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGGTTTTATCTCGGATATTACAccc                                                                                                                 >  7:72598/1‑138 (MQ=255)                   cccTTTTGCGGTCGTCCTCAGACTGAAAACTGATCCTTAAAATACCGTTAATATACTCTCGTGTTTCGATAATGCGGCTATTCGTGATTCTGATGCGCGCCGCAGCTAAGATAGCTGTTATCTAGGATATTACACCcgg                                                                                                               >  2:403945/1‑139 (MQ=255)                   cccTTTTGCGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATTATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCcgg                                                                                                               >  7:183922/1‑139 (MQ=255)                   cccTTTTGCGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTAtc                                                                                                                                <  6:403118/122‑1 (MQ=255)                   cccTTTTGCGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTAtc                                                                                                                                >  5:403118/1‑122 (MQ=255)                   cccTTTTGCGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACAcc                                                                                                                  <  8:119648/136‑1 (MQ=255)                   cccTTTTGCGGTCGTCATCAGAATGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACAcc                                                                                                                  <  8:209383/136‑1 (MQ=255)                    ccttttGCGGTCGTCATCAGACTGAAAACTGATCCTTAAACTCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGga                                                                                                              <  2:122822/136‑1 (MQ=255)                        ttGCGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGgatgat                                                                                                          >  5:327807/1‑139 (MQ=255)                        ttGCGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCATTAATATCCTCTCGTGTTTCGATAATTCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGgatgat                                                                                                          >  1:201789/1‑139 (MQ=255)                         tGCGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTGTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGgatgat                                                                                                          <  3:87160/138‑1 (MQ=255)                           cGGTCGTGATGAGACAGAAAAATGATCGTTTAAATCCCGTTAATATACTGTGGGTGTTAGATTATGCGGTTATTCGTGTTTCTGTTTCGCTCCGCAGCTAAGATCGCTGGTATCTAGGATTTTACCCCCGGCTGATCgg                                                                                                       >  2:191320/1‑139 (MQ=255)                            ggTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCggg                                                                                                      >  5:313491/1‑139 (MQ=255)                             gtcgtcATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCgggt                                                                                                     >  6:425829/1‑138 (MQ=255)                             gtcgtcATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATACTCTCGTGTTTCGATAATGCGGATATTAGTGATACTGATTCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCggg                                                                                                      >  2:137171/1‑138 (MQ=255)                                gtcATCAGACTGAATACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGGTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACa                                                                                                  <  4:359708/139‑1 (MQ=255)                                   atcaGACTGAAAACTGATCCTTAAACTCCCGATAATATCCTCTCGGGTTTCGATAATGCGGATATTCGTGATACTGAGGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATcc                                                                                               <  8:408980/139‑1 (MQ=255)                                   atcaGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATc                                                                                                <  2:19436/138‑1 (MQ=255)                                   atcaGACTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATc                                                                                                <  5:53910/138‑1 (MQ=255)                                   atcaGACTGAAAACTGATCCTTAAAATCCCATTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATc                                                                                                <  2:201789/138‑1 (MQ=255)                                        aCTGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACata                                                                                          >  5:45805/1‑139 (MQ=255)                                          tGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTAtctc                                                                                                                              >  6:1081/1‑101 (MQ=255)                                          tGAAAACTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTAtctc                                                                                                                              <  5:1081/101‑1 (MQ=255)                                            aaaaCTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATaaa                                                                                      >  4:343723/1‑139 (MQ=255)                                            aaaaCTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATaa                                                                                       >  6:252028/1‑138 (MQ=255)                                               aCTGATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATca                                                                                   <  1:403945/139‑2 (MQ=255)                                                  gATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCgggta                                                                                                    <  1:257572/119‑3 (MQ=255)                                                  gATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCgggta                                                                                                    >  2:257572/1‑117 (MQ=255)                                                  gATCCTTAAAATCCCGTTAATATCCTCTCGTGTTTAGATAATGCGGATAATCGTCATAATGATGCGCTCCGCAGCTAAGATCGCAGTTATCTCGGAAATTACACCAGTATGAACGGGTAAATACACAAAAAAATCATa                                                                                 >  2:150206/1‑138 (MQ=255)                                                               ccGTTAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATc                                                                    <  8:15953/138‑1 (MQ=255)                                                                  ttAATATCCTCTCGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATcgctc                                                                >  1:165845/1‑137 (MQ=255)                                                                           tctcGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGc                                                                           <  1:396279/119‑1 (MQ=255)                                                                           tctcGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGc                                                                           >  2:396279/1‑119 (MQ=255)                                                                            ctcGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACGTCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGcc                                                       >  3:62982/1‑138 (MQ=255)                                                                             tcGTGTTTCGATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCg                                                      >  7:266116/1‑138 (MQ=255)                                                                                    tcgataatGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCgg                                                >  3:292274/4‑137 (MQ=255)                                                                                          atGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGt                                        <  2:357600/139‑1 (MQ=255)                                                                                          atGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGt                                        <  5:425829/139‑1 (MQ=255)                                                                                             cGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCgg                                                                                                                            <  5:285431/52‑1 (MQ=255)                                                                                             cGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCgg                                                                                                                            >  6:285431/1‑52 (MQ=255)                                                                                               gATATTCGTGCAACGGCTGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATAATACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGCTATCGCTCCCTTCTGCCGAACCGGCAGCCCGTCGCGa                                   <  4:46357/139‑1 (MQ=255)                                                                                               gATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTCTCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGa                                   <  5:305856/139‑1 (MQ=255)                                                                                               gATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGa                                   <  5:252028/139‑1 (MQ=255)                                                                                               gATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGa                                   <  3:343723/139‑1 (MQ=255)                                                                                               gATATTCGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGa                                   <  8:356384/139‑1 (MQ=255)                                                                                                     cGTGATACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTGCTGCCGAAGCGGCAGCCCGTCGCGATAATcc                             >  2:386309/1‑139 (MQ=255)                                                                                                         aTACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGATAATCCTTgg                         <  6:313491/139‑1 (MQ=255)                                                                                                         aTACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGATAATCCTTgg                         <  8:342683/139‑1 (MQ=255)                                                                                                          tACTGATGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGATGCGGCAGCCCGTCGCGATAATACTTGGc                        >  8:122554/1‑139 (MQ=255)                                                                                                               aTGCGCTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGATAATCCTTGGCTGttt                   >  6:360251/1‑139 (MQ=255)                                                                                                               aTGCGCTCCGCAGCAAAGATAGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATAATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGAGGCAGCCCCTCGCGAGAAAACTTGGCGGttg                   >  6:399220/1‑138 (MQ=255)                                                                                                                  cgcTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCgggta                                                                                                    >  4:387752/1‑53 (MQ=255)                                                                                                                  cgcTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCgggta                                                                                                    <  3:387752/55‑3 (MQ=255)                                                                                                                  cgcTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGCTAATCCATTGGAGTTTTa                 >  4:250510/1‑138 (MQ=255)                                                                                                                  cgcTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGATAATCCTTGGCTGTTTTa                 >  3:402303/1‑138 (MQ=255)                                                                                                                    cTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATa                                                                                 <  5:280467/72‑1 (MQ=255)                                                                                                                    cTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGATAATCCTTGGCTGTTTTaaaa              >  7:161475/1‑139 (MQ=255)                                                                                                                    cTCCGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGATAATCCTTGGCTGTTTTaaa               >  3:367735/1‑138 (MQ=255)                                                                                                                       cGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGATAATCCTTGGCTGTTTTAAAATaa           <  8:183922/139‑1 (MQ=255)                                                                                                                       cGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGATAATCCTTGGCTGTTTTAAAATaa           >  2:271882/1‑139 (MQ=255)                                                                                                                       cGCAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGAGAATCCTTTGCGGTTTTtaaaaa            >  2:215520/1‑136 (MQ=255)                                                                                                                         cAGCTAAGATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGATAATCCTTGGCTGTTTTAAAATAACg         >  2:86739/1‑139 (MQ=255)                                                                                                                                gATCGCTGTTATCTCGGATATTACACCCGGATGATCGGGTACATCCACATATAAATCATAAAATGCAGGTATCGCTCCCTTCTGCCGAAGCGGCAGCCCGTCGCGATAATCCTTGGCTGTTTTAAAATAACGAAATAGa  <  8:287350/139‑1 (MQ=255)                                                                                                                                   |                                                                                                                                        CTTCAATGCATTGTTCTGCCCGTTTGCGGTCGTCATCAGACTGAAAACTGATCCTTAAAATCCCGTTAATATCTTCTCGTGTTTCAATAATGCGGATATTCGTGATACTGATGCGCTCCGCAGCTAAGATAGCCGTTATCTCGGAAATCACACCGGGATGATCGGGAACATCCACATATAAATCGTAAAATGCAGGTATCGCGCCCTTCTGCCGAAGCGGCAGTCCGTCGCGATAATCCTTGGCCGTTTTAAAATAACGAAATAGA  >  CP006881/2187147‑2187412

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑