Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,069,743	C→T	A33T (GCA→ACA)	rutG ←	pyrimidine:H(+) symporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,069,743	0	C	T	96.7%	78.8 / NA	31	A33T (GCA→ACA)	rutG	pyrimidine:H(+) symporter
Reads supporting (aligned to +/- strand):  ref base C (0/1);  major base T (16/13);  minor base G (0/1);  total (16/15)
Fisher's exact test for biased strand distribution p-value = 4.67e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.30e-01

CAGCGCAATGCTGATATTCGGGTTAATGCCCTGACCGTTAAAGCCCGTCGCGG‑CGATCACCACGCCGACAAAAGCCGCGCTGGAGCCGAGATAACTGGGG‑ACGCGCCCGCCGGTAATAAAGAAAAACAGTAACGTGCCGATCCCCGACATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGCCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGTGCCGACGCTCACCACCT  >  NC_000913/1069501‑1069987                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                     cAGCGCAATGCTGATATTCGGGTTAATGCCCTGACCGTTAAAACCCGTCGCGG‑CGATCACCACGCCGACAAAAGCCGCGCTGGAGCCGAGATAACTGGGG‑ACGCGCCCGCCGGTAATAAAGAAAAACAGTAACGTGCCGATCCCCGGCATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTg                                                                                                                                                                                                                                                >  1:32381/1‑249 (MQ=255)           cTGATATTCGGGTTAATGCCCTGACCGTTAAAGCCCGTCGCGG‑CGATCACCACGCCGACAAAAGCCGCGCTGGAGCCGAGATAACTGGGG‑ACGCGCCCGCCGGTAATAAAGAAAAACAGTAACGTGCCGATCCCCGACATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTAATGTCGTCTGAGCAAACGGCa                                                                                                                                                                                                                                     >  2:147757/1‑250 (MQ=255)                  cgggtttAATGCCCTGCCCGTAAAAGCCC‑TCCCGGGCGATCCCCCCGCCGAAAAAGGCCGCGCTGGGGCCGAGAAACCTGGGG‑ACGCTCCCGCCGGTAATAAAGAAAAACAGTAACGTGCCGATCCCCGACATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCa                                                                                                                                                                                                                             <  1:178177/246‑1 (MQ=255)                             catcgcccgtgaaccccgggcgcgG‑CGACCACCACCCCGAAAAAGGCCGCGTGGGAGCCGAGAAACCGGGGG‑ACGCGCCCGCCGGTAATAAAGAAAAACAGTAACGTGCCGATCCCCGACATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGAc                                                                                                                                                                                                                  <  2:194514/231‑1 (MQ=255)                               cTGACCGTTAAAGCCCGTCGCGG‑CGATCACCACGCCGACAAAAGCCGCGCTGGAGCCGAGATAACTGGGG‑ACGCGCCCGCCGGTAATAAAGAAAAACAGTAACGTGCCGATCCCCGACATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGAcc                                                                                                                                                                                                                 >  1:55784/1‑250 (MQ=255)                                     gTTAAAGCCCGTCGCGG‑CGATCACCACGCCGAAAAAAGCCGCGCTGGAGCCGAGATAAATGGGG‑ACGCGCCCGCCGGTACTAAAGAAAAACAGTAACGTGCCGATCCCCGACATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCAcgccgc                                                                                                                                                                                                          >  1:105756/1‑251 (MQ=255)                                       tAAAGCCCGTCGCGG‑CGATCACCACGCCGACAAAAGCCGCGCTGGAGCCGAGATAACTGGGG‑ACGCGCACGACGGTAATCAAGCAAAACAGTACCGTGCCGATCCCCGACATTAAAATGGCAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGctc                                                                                                                                                                                                        >  1:154182/1‑251 (MQ=255)                                         aaGCCCGTCGCGG‑CGATCACCACGCCGACAAAAGCCGCGCTGGAGCCGAGATAACTGGGG‑ACGCGCCCGCCGGTAATAAAGAAAAACAGTAACGTGCCGATCCCCGACATTAAAATGGCACGCTTGGGATCCCGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAACCATCGCCACCGCGTGTTCAACGCCCCTTACTGTCGTCTGAGCAACCGGCAATCGTTCCGCCGCCGCGCCCACGCCGctctc                                                                                                                                                                                                      >  2:98867/1‑251 (MQ=255)                                                        aaccccccccccaaaaaaggCCGCGGTGGAGCCGAGA‑AACGGGGGGCCGCGCCCGCCGGTAATAAAGAAAAACAGTAACGTGCCGATCCCCGACATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGAtt                                                                                                                                                                                        <  1:57939/232‑1 (MQ=255)                                                                    gACAAAAGCCGCGCTGGAGCCGAGATAACTGGGG‑ACGCGCCCGCCGGTAATAAAGAAAAACAGTAACGTGCCGATCCCCGACATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGt                                                                                                                                                                            >  1:99919/1‑251 (MQ=255)                                                                                  gggggcagaaaaaccggggg‑CCGCCCCCGCCGGTAATAAAGAAAAACATTAACGTGCCGATCCCCGACATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAAc                                                                                                                                                              <  1:210135/235‑1 (MQ=255)                                                                                                    gggccgccccccccgGTAATAAAGAAAAACAGTAACGTGCCGATCCCCGACATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCCCCGCGTGTTGAACGCCCATTACTGTCGTCGGAGCAAACGGCATTCGTTCACCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGtct                                                                                                                                             <  1:277548/239‑1 (MQ=255)                                                                                                                       aaaaaaaaaaCAGTACCGGCCCGAGCCCCGACATTAAAATGGAAAGATTGGGAGCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCCCCGCGTGTTGAACGCCCATTGCTGCCGTCTGGGCAACCGGCAACCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCGGTCTCCTTAAGGAGGTTAACAAg                                                                                                                          <  1:216541/246‑1 (MQ=255)                                                                                                                                         tGCCGATCCCCGACATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGt                                                                                                        >  2:245804/1‑251 (MQ=255)                                                                                                                                            cGATCCCCGACATTAAAAGGGAAAGATTGGGATCCAGCCCAATCAGAATCGGCATTAACACCGTCGCGCCAAACATCCCCGCCGCGTGTTGAACGCCCATTACTGTCTTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCGCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGAt                                                                                                     <  1:95184/251‑1 (MQ=255)                                                                                                                                                       aTTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCg                                                                                          <  1:245804/251‑1 (MQ=255)                                                                                                                                                          aaaaTGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGCCCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAAc                                                                                       <  1:207217/251‑1 (MQ=255)                                                                                                                                                          aaaaTGGAAAGATTGGGACCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGGCCACGCCGCGCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAAc                                                                                       <  1:25825/251‑1 (MQ=255)                                                                                                                                                                     aTTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGACCCACCCCAGccc                                                                            >  2:60718/1‑251 (MQ=255)                                                                                                                                                                          gATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAACCACACCAGCCCGTAgg                                                                       >  1:40631/1‑251 (MQ=255)                                                                                                                                                                              cAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAACCACACCAGCCCGTAGggtgt                                                                   >  1:541/1‑251 (MQ=255)                                                                                                                                                                               aGCCCCATCAGACTCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAACCGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCt                                                                                                                                                 >  2:265648/1‑172 (MQ=255)                                                                                                                                                                               aGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACACCGCCACCGCGTGTTGAACGCCCATTGCTGTCGTCTGACCAAACGACAATGGTTCATCCGGCCCGACCACGCCGCTCTCTGTATAGTTCTATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCt                                                                                                                                                 <  1:265648/172‑1 (MQ=255)                                                                                                                                                                                gCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAACCACACCAGCCCGTAGggtgtgg                                                                 >  2:108839/1‑251 (MQ=255)                                                                                                                                                                                              ggCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATc                                                   <  1:147757/251‑1 (MQ=255)                                                                                                                                                                                                    aaCACCGCCCCGCCAAACACCGCCCCCCCGTGTTGACCGCCCATTACGGTCGTCTGAGCAAACGGCAATGGTCCACCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTc                                              <  2:124779/250‑1 (MQ=255)                                                                                                                                                                                                              cgcCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCaa                                    >  1:193468/1‑250 (MQ=255)                                                                                                                                                                                                              cgcCAAACAGCCCCGCCGCGGTTTGAACGCCCTTTACGGGCGGCTGAGCAAACGGAAATCGTTCACCGGGCGCGCCCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCaaa                                   <  2:189758/251‑1 (MQ=255)                                                                                                                                                                                                                                 gtgtTGAACGCCCATTACTGTCGTCTGAGCAACCGGCAATCGTTCATCCGGCGCGCCCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGAAAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGTGcc                <  1:454/251‑1 (MQ=255)                                                                                                                                                                                                                                          gCCCATTACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAACACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTACCAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAACGACACAAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAACCAGAATGTCGTGGGTGCCGACGCTcac       >  2:181941/1‑251 (MQ=255)                                                                                                                                                                                                                                               ttACTGTCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGTGCCGACGCTCACCACCt  >  1:5371/1‑251 (MQ=255)                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                     CAGCGCAATGCTGATATTCGGGTTAATGCCCTGACCGTTAAAGCCCGTCGCGG‑CGATCACCACGCCGACAAAAGCCGCGCTGGAGCCGAGATAACTGGGG‑ACGCGCCCGCCGGTAATAAAGAAAAACAGTAACGTGCCGATCCCCGACATTAAAATGGAAAGATTGGGATCCAGCCCCATCAGAATCGGCATTAACACCGTCGCGCCAAACATCGCCACCGCGTGTTGAACGCCCATTACTGCCGTCTGAGCAAACGGCAATCGTTCATCCGGCGCGACCACGCCGCTCTCTGTAGAGGTCGATTTTAACTGCCAGTGAGGAAAACCGAACATTGCCATCAGCTGTCTCCTTAAGGAGGTTAACAAGCAGGGCGCATCAGCGCGTGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGTGCCGACGCTCACCACCT  >  NC_000913/1069501‑1069987

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑