Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	12,846	G→T	G228G (GGG→GGT)	dnaK →	chaperone protein DnaK

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	12,846	0	G	T	89.7%	64.1 / ‑2.6	30	G228G (GGG→GGT)	dnaK	chaperone protein DnaK
Reads supporting (aligned to +/- strand):  ref base G (1/2);  new base T (14/12);  total (16/14)
Fisher's exact test for biased strand distribution p-value = 5.98e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.99e-01

ACTTTAACGATGCTCAGCGTCAGGCAACCAAAGACGCAGGCCGTATCGCTGGTCTGGAAGTAAAACGTATCATCAACGAACCGACCGCAGCTGCGCTGGCTTACGGTCTGGACAAAGGCACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGGGGTGAAGACTTCGACAGCCGTCTGATCAACTATCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCGAACTGTCTTCCGCTCAGCAGACCGACGTTAACC‑TGCCATACATCACTGCAGACGCGACCGGTCCGAAACACATGAACATCAAAGTGACTCGTGCGAAACTGGAAAGCCTGGTTGA  >  NC_000913/12596‑13091                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                       aCTTTAACGATGCTCAGCGTCAGGCAACCAAAGACGCAGGCCGTATCGCTGGTCTGGAAGTAAAACGTATCATCAACGAACCGACCGCAGCTGCGCTGGCTTACGGTCTGGACAAAGGTACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTgggg                                                                                                                                                                                                                                                        >  1:59135/1‑251 (MQ=255)            gCTCAGCGTCAGGCAACCAAAGACGCAGGCCGTATCGCTGGTCTGGAAGTAAAACGTATCATCAACGAACCGACCGCAGCTGCGCTGGCTTACGGTCTGGACAAAGGTACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACtt                                                                                                                                                                                                                                             >  1:314493/1‑251 (MQ=255)              ccAGCGTCAGGCAACCAAAGACGCAGGCCGTATCGCTGGTCTGGAAGTAAAACGTATCATCAACGAACCGACCGCAGCTGCGCTGGCTTACGGTCTGGACAAAGGTACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCg                                                                                                                                                                                                                                           <  1:350608/250‑1 (MQ=255)                     cAGGCAACCAAAGACGCAGGCCGTATCGCTGGTCTGGAAGTAAAACGTATCATCAACGAACCGACCGCAGCTGCGCTGGCTTACGGTCTGGACAAAGGTACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCg                                                                                                                                                                                                                                    <  1:219083/251‑1 (MQ=255)                      aGGCAACCAAAGACGCAGGCCGTATCGCTGGCCTGGAAGTAAAACGTATCATCAACGAACCGACCGCAGCTGGGCTGGATTACGGTCTGGACAAAGGTACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGGTGACGGCGAAAAAACCTTAGAAGTTCTGGCAACCAACGGGGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGt                                                                                                                                                                                                                                   >  2:344375/1‑251 (MQ=255)                        gCAACCAAAGACGCAGGCCGTATCGCTGGTCTGGAAGTAAAACGTATCATCAACGAACCGACCGCAGCTGCGCTGGCTTACGGTCTGGACAAAGGCACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAA‑CCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGGGGTGAAGACTTCGACAGCCGTCTg                                                                                                                                                                                                                                <  1:369725/251‑1 (MQ=255)                        gCAACCAAAGACGCAGGCCGTATCGCTGGTCTGGAAGAAAAACGTATCATCAACGAAACGACCGCAGCTGCGCTGGCTTACGGTCTGGACAAAGGTACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGACGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGACGTCt                                                                                                                                                                                                                                 >  1:208977/1‑251 (MQ=255)                                                        ggAAGTAAAACGTATCATCAACGAACCGACCGCAGCTGCGCTGGCTTACGGTCTGGATAAAGGTACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTTGTGGTACTTTCGATATTTCTATTAACGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCGGGTTGAAGAATTCaagaaa                                                                                                                                                                                                  <  1:291429/250‑1 (MQ=255)                                                                  cGTATCATCAACGAAACGACCGAAGCTGAGCTGGCTTACGGTCTGGACAAAGGAAATGGCAACCGTACTATCGCGGTTTATGACCTGGGAGGTGGAACTTTCGGTAATTCTATTAGCGAAATCGAAGAAGTTGACGGCGCAAAAACCTTCGAAGTTCTGGCAACAAACGGGGATAAACACCTGGGTGGTGCAGACTTCAACCACCGTCTGGTCAACGACCGTGTTGAAGAATTAAAGAAAGATCAGGGCa                                                                                                                                                                                        >  2:331251/1‑250 (MQ=255)                                                                                       gCAGCTGCGCTGGCTTACGGTCTGGACAAAGGTACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCt                                                                                                                                                                  <  1:344375/251‑1 (MQ=255)                                                                                         aGCTGCGCTGGCTTACGGTCTGGACAAAGGTACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTgg                                                                                                                                                                >  1:328475/1‑251 (MQ=255)                                                                                           ctgcaatGGCGTACGGTCTGGACACAGGTACTGGCAAACGTACTATCGAGGTTTATGATCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGCCGACGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGGGAACCCCACCTGGGTGGGGCAGCCTTCGACAGACGTCTGATCAACTACCTGGTTGAAGAATCAAAGAAAGATCAGGGCATAGACCTGCGAAACgtaccgcaggc                                                                                                                                                               >  2:328871/7‑240 (MQ=255)                                                                                              cgcTGGCTTACGGTCTGGACAAAGGTACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACCACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATg                                                                                                                                                           <  1:206106/251‑1 (MQ=255)                                                                                                             tGGACAAAGGTACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAaaga                                                                                                                                             >  1:6803/1‑250 (MQ=255)                                                                                                              ggACAAAGGTACTGTCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAaagaa                                                                                                                                            <  2:6803/250‑1 (MQ=255)                                                                                                                     ggtaCTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGAGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGAGGGAGAAAAAACCTTCGAAGTTCTGGCAACCAACGGAGATACCCACCTGGGAGGAGAAGACTTCGTCAGCCGTCTGATCAACCACCTAGTTGAAGAATTCAAGAAAGATCAGGGCATAGACCTGCGCAACGCTCCGCTGGCAAAGCAGCGTCTGAaagacacggc                                                                                                                                       >  2:58674/4‑242 (MQ=255)                                                                                                                               aCCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAACGCGaa                                                                                                                           >  1:265289/1‑250 (MQ=255)                                                                                                                                    aCTAGCGCGGTTTATGACCTGGGGGGTGGTACTTTCGATATGTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAAGTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCg                                                                                                                      <  2:166570/250‑1 (MQ=255)                                                                                                                                       aTCGCGGGTGATGACCTGGGTGGTGGGATTTTCGATATTTCTATTAGCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTACTTGCAACCAACGGTGATACCCCCCTGGTTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCTCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCGAACt                                                                                                                  <  1:214768/251‑1 (MQ=255)                                                                                                                                                tATGACCTGGGCGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGCAGTTCTGGCAACCAACGGTGATACCCACCTGGGTAGTGAAGCCTTAGAAAGCCGTATGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCATGGCCTGGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGAGCAAATCGAACCGTCTTCCGc                                                                                                         >  2:375824/1‑251 (MQ=255)                                                                                                                                                                      tCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCGTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCGAACTGTCTTCCGCTCAGCAGACCGACGTTAACC‑t                                                                                   <  1:258960/250‑1 (MQ=255)                                                                                                                                                                               cTATTATCGAACTCGAAGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCGACGGTGATACCCACCTGGGGGGTGAAGACTTCGACAGCCGTCTGATCAACTATATGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGAAATGCAGCGCCTGAAAGACGCGGCAGAAAAAGCGAAAATCGAACTGTCTTCCGCTCAGCAGACCGACGT‑AACCATGCCAAACATc                                                                         >  2:200924/1‑251 (MQ=255)                                                                                                                                                                                         aaTCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATAACCACCTGGGTGGTGAAGACTTCGACCACCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCGAACTGTCTTCCGCTCAGCAGACCGACGTTAACC‑TGCCGTACATCACTGCAGatg                                                               >  1:241709/1‑249 (MQ=255)                                                                                                                                                                                          aTCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCGAACTGTCTTCCGCTCAGCAGACCGACGTTAACC‑TGCCGTACATCACTGCAGatgc                                                              >  1:68465/1‑248 (MQ=255)                                                                                                                                                                                                 aatttGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGAGCATGAAAGAAGCGGCAGAAAAAGAGAACATCGAACTGTCTTCCGCTCAGCAGACCGACGTTACCC‑TGCCGTAcctaactgaaactgtgaccgtt                                                       >  2:297256/4‑230 (MQ=255)                                                                                                                                                                                                       aCGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGGGAAGACTTCGAAAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCGAACTGTCTTCCGCTCAGCAGACCGACGTTAACC‑TGCCGTACATCACTGCAGATGCGACCGGTCCGaaa                                                 <  1:231965/251‑1 (MQ=255)                                                                                                                                                                                                                aaaCCTGCGAAGTTCCGGCAACCAACGTGGATACCCACCTGGGGGTTGAAGACTGCGACTGCCTGCTGAACAACTGTCTGGTTGAAAAATACAAGAAAGATCAGTGCATGGACCGGAGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCGACCTGCCTTCCGCTCAGCAGACCGACGTTAACC‑TGCCGTACATCACTGCAGATGCGACCGGTCCGAAACACATGAAc                                        <  2:34224/251‑1 (MQ=255)                                                                                                                                                                                                                         aaGTTCTGGCAACCAACGGTGATACCCACCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCGAACTGTCTTCCGCTCAGCAGACCGACGTTAACC‑TGCCGTACATCACTGCAGATGCGACCGGTCCGAAACACATGAACATCAAAGTg                               >  1:277867/1‑251 (MQ=255)                                                                                                                                                                                                                              cgggCAACCATCGGTGATACCCACCGGGGTGGTGAAGACTTCGACAGCCGTCTGTTCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCGAACTGTCTTCCGCTCAGCAGACCGACGTTAACC‑TGCCGTACATCACTGCAGATGCGACCGGTCCGAAACACATGAACATCAAAGTGACTc                           <  2:314493/248‑1 (MQ=255)                                                                                                                                                                                                                                  caaccaacGGTGAGACCCGCCTGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCGAACTGGCTTCCGCTCAGCAGACCGACGTTAACC‑TGCCGTACATCACTGCAGATGCGACCGGTCCGAAACACATGAACATCAAAGTGACTCGTGCg                      <  2:59135/251‑1 (MQ=255)                                                                                                                                                                                                                                                       tGGGTGGTGAAGACTTCGACAGCCGTCTGATCAACTACCTGGTTGAAGAATTCAAGAAAGATCAGTGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCGAACTGTCTTCCGCTCAGCAGACAGACGTTAACC‑TGCCGTACATAACTGCAGATGCGACCGGTCACAAACACATGAACATCAAAGTGACTCGTGCGAAACTGGAAAGCCTGGTTgc  >  2:296050/1‑249 (MQ=255)                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                       ACTTTAACGATGCTCAGCGTCAGGCAACCAAAGACGCAGGCCGTATCGCTGGTCTGGAAGTAAAACGTATCATCAACGAACCGACCGCAGCTGCGCTGGCTTACGGTCTGGACAAAGGCACTGGCAACCGTACTATCGCGGTTTATGACCTGGGTGGTGGTACTTTCGATATTTCTATTATCGAAATCGACGAAGTTGACGGCGAAAAAACCTTCGAAGTTCTGGCAACCAACGGTGATACCCACCTGGGGGGTGAAGACTTCGACAGCCGTCTGATCAACTATCTGGTTGAAGAATTCAAGAAAGATCAGGGCATTGACCTGCGCAACGATCCGCTGGCAATGCAGCGCCTGAAAGAAGCGGCAGAAAAAGCGAAAATCGAACTGTCTTCCGCTCAGCAGACCGACGTTAACC‑TGCCATACATCACTGCAGACGCGACCGGTCCGAAACACATGAACATCAAAGTGACTCGTGCGAAACTGGAAAGCCTGGTTGA  >  NC_000913/12596‑13091

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑