Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	310	(T)9→8	intergenic (+55/‑27)	thrL → / → thrA	thr operon leader peptide/fused aspartate kinase/homoserine dehydrogenase 1

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	310	0	T	.	92.6%	91.8 / 3.5	28	intergenic (+55/‑27)	thrL/thrA	thr operon leader peptide/fused aspartate kinase/homoserine dehydrogenase 1
Reads supporting (aligned to +/- strand):  ref base T (0/2);  new base . (15/10);  total (15/13)
Fisher's exact test for biased strand distribution p-value = 1.88e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.08e-01

AACTGGTTACCTGCCGTGAGTAAATTAAAATTTTATTGACTTAGGTCACTAAATACTTTAACCAATATAGGCATAGCGCACAGACAGATAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTTT‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGTGTTGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCAACCACCTGGTGGCGATGATTGAAAAAACCATTAGCGGCCAGGATGCTTTACCCAATATCAGCGATGCCGAACGTATTTTTGCCG  >  NC_000913/76‑553                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                     aaCTGGTTACCTGCCGTGAGTAAATTAAAATTTTATTGACTTAGGTCACTAAATACTTTAACCAATATAGGCATAGCGCACAGACAGATAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACg                                                                                                                                                                                                                                      >  1:141340/1‑249 (MQ=255)                  gAGTAAATTAAAATTTTATTGACTTAGGTCACTAAATACTTTAACCAAAATAGGCATAGCGCACATACAGATAAAAATTCCAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAgt                                                                                                                                                                                                                   <  2:391145/251‑1 (MQ=255)                       aaTTAAAATTTTATTGACTTAGGTCACTAAATACTTTAACCAATATAGGCATAGCGCACAGACAGATAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACAACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGCAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTg                                                                                                                                                                                                               >  1:92312/1‑250 (MQ=255)                            aaaTTTTATTGACTTAGGTCACTAAATACTTTAACCAATATAGGCATATCGCACAGACAGATAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCCCCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTc                                                                                                                                                                                                         <  2:461196/251‑1 (MQ=255)                                  tATTGACTTAGGTCACAAAATACTTTAACCAATATAGGCATAGCGCACAGACAGATAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTcggcgg                                                                                                                                                                                                    <  2:338872/250‑1 (MQ=255)                                                       acgtaaaCCAAAATAGCCAGAGCGCACAGACAGATAAAAATTCCAGAGTACACAACATCGATGAAGCGCATGATCACCACCATTACCACCGCCATCGCCATTACCACAGGTAACGGTGCGTGCTGACGCGTACAGGAAACACAGAAAAAAGCCCTCACCTGACAGTGCGGTCTGTTTTTT‑‑CCACCAAATGCAACGAGGTAACAACCATGCGAGGTTTGAAGCTCGGCGGTACAGCAGTGGCAAATGCAgt                                                                                                                                                                               <  2:228804/245‑2 (MQ=255)                                                            aaCCAATATAGGCATAGCGCACAGACAGATAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGttt                                                                                                                                                                         >  1:142520/1‑251 (MQ=255)                                                              ccAATATAGGCATAGCGCACAGACAGATAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTc                                                                                                                                                                       >  1:384585/1‑251 (MQ=255)                                                              ccAATATAGGCATAGCGCACAGACAGATAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGAAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGttttt                                                                                                                                                                       >  2:310703/1‑250 (MQ=255)                                                               cAATATAGGCATAGCGCACAGACAGATAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCCCCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCt                                                                                                                                                                      <  2:126039/251‑1 (MQ=255)                                                               cAATAAAGGCATAGCGCACAGACCGATAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCCGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGGGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTACCAACAATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCaacaccaacacgtcttct                                                                                                                                                                      >  2:206231/1‑235 (MQ=255)                                                                             cgcACAGCCAGATAAAAATTACAGAGTACACAACATCCCTGACACGCATTAGCACCACCATTACAACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGACACACCGAACAAAGCCCGCACCTGACGGTACGGGCTTTTTTTT‑‑CGCCCATAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGGGGCAAATGCCGAACGTTTTATGCGGGTTgacgcg                                                                                                                                                         >  2:290394/1‑245 (MQ=255)                                                                                 cagacagaTAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCt                                                                                                                                                    <  1:201965/251‑1 (MQ=255)                                                                                               ttACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCTGGAAAGCAATGcc                                                                                                                                       >  2:374749/1‑250 (MQ=255)                                                                                                     agTACACAACAACCATGAACCGCATTAGCACCCCCATTACCACCACCAGCTCCATTTCCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACTCAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGTTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTGGCCGATATTCTGGAAAGCAATGCcaggcagg                                                                                                                                <  1:290394/251‑1 (MQ=255)                                                                                                              caTCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCTGGAAAGCAATGCCAggcaggggcaggggg                                                                                                                       >  1:328225/1‑248 (MQ=255)                                                                                                                       aaCGCATTAGCACCACAATTACCACCACCATCACCATTACCACAGGTACCGGTGCGGGCTGACGCGTACAGGAAACACAGAAAACAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTTGCAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCTGGAAAACAATGCCAGGCCGGGGGAGGTGGCCCCCggcc                                                                                                              >  2:292692/1‑248 (MQ=255)                                                                                                                                                      caccatTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCAACCACCt                                                                               >  1:428694/1‑251 (MQ=255)                                                                                                                                                       accatTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGAAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCCGGGGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCAACCACCtg                                                                              >  2:173995/1‑251 (MQ=255)                                                                                                                                                                  gggTAAGGGGGCGGGCTGACGCGTAAAGGAAACACAAAAAAAAGCCCGCGCCTGACAGTG‑GGGTCTTTTTTTT‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTCCATCAGGGGCAAATGCAGAACGTTTTCTGCGGGTGGCGGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACGGTCCTCTCTGCCCCCGCCAAAATCACCAACCACCTGGTGGCgatgat                                                                   <  2:477668/250‑1 (MQ=255)                                                                                                                                                                  agggaaCGGGGCGGGCTGACGCGTAAAGGAAACACAGAAAAAGGCCCGCACATGACAGGGCGGGCTTTTTTTTTTCGACCAAAGGTAACGAGGTAAAAACCATGCGAGTGTTGAAGTTCGGCGGAAAATAAGTGGCAAATGCAGAACGTTTTCTGCGTGTTGTCGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCAACCTCCTGGTGGCgatg                                                                     <  1:102124/247‑1 (MQ=255)                                                                                                                                                                          gggcgggctgagtcgaaaagaaaaCACAGAAAAAAGCCCGTACCTGACAGGGGGGGCTTTTTTTT‑‑CGACCAAAGGTAACGGGGTAACAATCATGCGAGTGTGGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTGGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCACTACCCCCGCCAAAATCACCAACCTCCTGGTGGCGATGATTGaaaaaa                                                           <  2:326432/230‑1 (MQ=255)                                                                                                                                                                                  tGACGCGTAAAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTAAATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTACTTTCTGCCCCCGCCCAAATCACCAACCACCTGGGGGCGATGATTGGAAAAAACAATAGc                                                   >  2:202978/1‑251 (MQ=255)                                                                                                                                                                                     cgggTACAGGAAACACAAAAAAAAGCCCGCCACTGAAAGTGCGGG‑TTTTTTTTC‑CGAACAAAGGTAACGGGGTAACACCCAGGTGAGTGTTGAAGTTCGGCGGTACATCAGTGGAAAAGGCAGAACGTTTTCTGCGGGTTCCAGATATTCGGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCAACCACCTGGTGGCGATGATTGAAAAAACCATTAGCGGc                                                <  2:418897/248‑1 (MQ=255)                                                                                                                                                                                           cAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTACCAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCACCCACCTGGTGGCGATGATTGAAAAAACCATTAGCGGCCAGGAt                                          <  1:374749/251‑1 (MQ=255)                                                                                                                                                                                           aagaaaaCAAAGAAAAAAGCCCGCACCTGCCATTGCGGGCTTTTTGTC‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGAAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCTGGAAAGCAAGGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCAACCACCTGGTGGCGATGATTGAAAAAACCATTAGCGGCCAGGAt                                          <  2:303079/247‑1 (MQ=255)                                                                                                                                                                                                                cGCACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCAACCACCTGGTGGCGATGATTGAAAAAACCATTAGCGGCCAGGATGCTTTACCCAATATCAGCGAt                     >  1:300367/1‑251 (MQ=255)                                                                                                                                                                                                                  cACCTGACAGTGCGGGCTTTTTTTT‑‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCAACCACCTGGTGGCGATGATTGAAAAAACCATTAGCGGCCAGGATGCTTTACCCAATATCAGCGATGc                   >  1:289801/1‑251 (MQ=255)                                                                                                                                                                                                                                    tttttttt‑CGACCAACGGTAACGAGGTAACAACCATGCGAGCGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCCGGTGGCCACCGTCCTCTCTGCCCCCGCCCAAATCACCAACCACCTGGTGGCGATGATTGAAAAAACCATTAGCGGCCAGGATGCTTTACCCAATATCAGCGATGCCGAACGAATTTTTGCCg  >  1:339541/1‑251 (MQ=255)                                                                                                                                                                                                                                     ttttttt‑CGACCAAAGGTAACGAGGTAACAACCATGCGCGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGGGTTGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCAACCACCTGGTGGCGATGATTGAAAAAACCATTAGCGGCCAGGATGCTTTACCCAATATCAGCGATGCCGCACGTATTTTTGCCg  >  1:132958/1‑250 (MQ=255)                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                     AACTGGTTACCTGCCGTGAGTAAATTAAAATTTTATTGACTTAGGTCACTAAATACTTTAACCAATATAGGCATAGCGCACAGACAGATAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTTT‑CGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGTGTTGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCAACCACCTGGTGGCGATGATTGAAAAAACCATTAGCGGCCAGGATGCTTTACCCAATATCAGCGATGCCGAACGTATTTTTGCCG  >  NC_000913/76‑553

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑