Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,652,331	T→C	intergenic (+2346/+397)	ydfD → / ← ynfP	lysis protein/protein YnfP

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,652,331	0	T	C	100.0%	56.6 / NA	17	intergenic (+2346/+397)	ydfD/ynfP	lysis protein/protein YnfP
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (7/10);  total (7/10)

TTATGGTGTGTTTCTGTTTATACTGGAGTTCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAAT‑CGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACTTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGCTGGTCGCTGACAGCTGGTGCTAACCCGGCATTTATAGCAAACCAGATGGGCCAT  >  NC_000913/1652085‑1652573                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                                   ttATGGTGTGTTTCTGTTTATACTGGAGTTCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAAT‑CGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCa                                                                                                                                                                                                                                                 <  2:342882/250‑1 (MQ=255)       tgtgtTTCTGTTTATACTGGAGCTCGCCCTGATGACCTGTGTGCACTTGGCTGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGCAATTTAGCAAAAGACCGTTTCTCGGCACCAAAAACACAGGCGGGGACAAAA‑CGGGTAATTCATTTTATTAACACAGCAATCGCCGCTCCCCGGCGTCAGATGACACTTAA‑GAGCCTGAGAAAAGAGCATATCCTTGATGTTTCCCTCAGAGAGt                                                                                                                                                                                                                                           >  2:66143/1‑250 (MQ=255)                  ttATACTGGAGTTCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACATGCGGGAACCAAT‑CGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGACTTAGCAAATAGCATATCTTTGATGTTCACCTCAGAGAGTATGGcagaaca                                                                                                                                                                                                                                <  1:279198/250‑1 (MQ=255)                      aCTGGAGTTCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAAT‑CGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGaaaa                                                                                                                                                                                                                           <  1:116254/251‑1 (MQ=255)                      aCTGGAGTTCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAAT‑CGGGGCAATCATCTTTTTAAGCCAGCCATCGACGCTCTCCGGAGGCAGATGACA‑TTAACGAGAACGAGCAAAGAGCATATCATTTATGTTCACCTCAAGGAGGATGGCCGAACAGaaa                                                                                                                                                                                                                            >  2:116254/1‑250 (MQ=255)                             ttCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCCAT‑CGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGGCTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCCGAACAAAAAAACaaaa                                                                                                                                                                                                                     >  1:465000/1‑250 (MQ=255)                                                                              aaaTGGAACAGTGCTGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACAAAGGCGGGAAAAAATAGGGGTC‑TTTATTTTTATAAACCAGCCATAGCCGATCTACGGAGAACGATGAAC‑TTTACTGGACCGAGCAAAAAACATATAATTGAAGTTAACCTCATAGAGGATGTCAGGAAAGAAAAACAAAAAATCACCTTTGTTTTTTAACCTGACGTGTCAGTCAGAGGaaaaacatgat                                                                                                                                                                   >  2:154606/1‑245 (MQ=255)                                                                                              atCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAAT‑CGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCgag                                                                                                                                                                                 >  1:368616/1‑221 (MQ=255)                                                                                              atCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAAT‑CGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCgag                                                                                                                                                                                 <  2:368616/221‑1 (MQ=255)                                                                                                     gaAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAAT‑CGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCGTTGTTTTTCAACCTGAAGTGTCGGCGAGATTAAAAAATTATGGTGACCATTTTACCGTTGACTCa                                                                                                                                            <  1:70651/251‑1 (MQ=255)                                                                                                                                         cacaGGCGGGAACCAAT‑CGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGcc                                                                                                        <  2:44182/251‑1 (MQ=255)                                                                                                                                                                          attaAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGAATGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATGTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTACCGGACTCCGCCATCGAAAATCATATCAGTCgag                                                                        <  2:191322/251‑1 (MQ=255)                                                                                                                                                                             aaGCCAGCAATCGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGAc                                                                      >  1:321946/1‑250 (MQ=255)                                                                                                                                                                                        cGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCct                                                          <  2:136130/251‑1 (MQ=255)                                                                                                                                                                                                   ggAGTCAGATGACA‑TTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGCTGGTCGCTg                                               >  1:43851/1‑251 (MQ=255)                                                                                                                                                                                                                                     agCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGCTGGTCGCTGACAGCTGGTGCTAACCCGGCATTTATAGCAAAc              <  2:465000/251‑1 (MQ=255)                                                                                                                                                                                                                                                 aTGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGCTGGTCGCTGACAGCTGGTGCTAACCCGGCATTTATAGCAAACCAGATGGGCCAt  <  1:370303/251‑1 (MQ=255)                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                                   TTATGGTGTGTTTCTGTTTATACTGGAGTTCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAAT‑CGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACA‑TTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACTTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGCTGGTCGCTGACAGCTGGTGCTAACCCGGCATTTATAGCAAACCAGATGGGCCAT  >  NC_000913/1652085‑1652573

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑