Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,110,554	C→T	intergenic (+113/+36)	pheV → / ← yghD	tRNA‑Phe/putative type II secretion system M‑type protein YghD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,110,554	0	C	T	100.0%	26.8 / NA	14	intergenic (+113/+36)	pheV/yghD	tRNA‑Phe/putative type II secretion system M‑type protein YghD
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (6/8);  total (6/8)

AATTTGATTGACGAGACGAGGCGAATCAGGTTTAATGCGCCCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTGCACATTCACCATCCCAGGCTTCT‑‑‑CAGCAGCACTGACATCAATTTGTGTCACCCGCAGCGCATATTTTTCATCCAGTGCGTTTAACCATTTCAGCAGGTCATTAAACACCACAGGTTCTATCCAGACCTGAATATTCTCCCCACGATCGGCTATCCGCCTG  >  NC_000913/3110320‑3110776                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                  aaTTTGATTGACGAGACGAGGCGAATCAGGTTTAATGCGCCCCGTTGCCCGGATAGCACAGACGGTAGAGAAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCAATACTTCTTAAGAACCCGCACACAAGACGAGATTTGGCTTTTGGCTCTGACAATAAACTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAATGAGAGTAATTTTATTg                                                                                                                                                                                                                   >  1:210720/1‑251 (MQ=25)                                                                                               cTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGAGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAATGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTGCACATTCACCATCCCAggn                                                                                                                                                  <  1:55939/222‑2 (MQ=255)                                                                                                            cGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGAGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAATGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTGCACATTCACCATCCCAGGCTTCTCAGCAGCAGCACTGACATCAATTTGTGTCACCCGCAgc                                                                                                        >  1:29417/1‑251 (MQ=255)                                                                                                                  cGGGCACCACTAATTCTTAAGAGCCCGCCCACAAGGCTAGTTTTTGCTTTTCGATCTGACAATAATCTGCACGAAAAAAACTAGCTTATAAAGTCTGGAGGAATTACTCTCGCCACGTTACTGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTGCCCCCGTCCAAACTCCAGCCGCTGCACATTCACCATCCCATGCTTCT‑‑‑CAGCAGCACTGACATCAATTTGTGTCACCCGCAGCGCATAtttt                                                                                               <  1:16622/251‑1 (MQ=255)                                                                                                                     gCACAACTAATTCTTAAGACCCCGCCCACAAGGCGAGTTTTTGCTTTTGGATCTGACAATAACCTTCACGCAAACAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAATGAGAGTAATTTTATTGCTATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTGCACATTCACCATCCCAGGCTTCT‑‑‑CAGCAGCACTGACATCACTTTGTGTCACCCGCAACGCATATTTTTc                                                                                             >  1:93818/1‑250 (MQ=255)                                                                                                                       accacTAATTCTTAAGAACCCGCCCACAAGGCGAGTTTTTACTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAATGAGAGTAAGTGTATTGATATTAATCTCCTGATGCTTTACCCCCGTCCAAACTCCAGCCGCTGCACATTCAcc                                                                                                                                                           <  1:216073/189‑1 (MQ=255)                                                                                                                                                       gagtgtttGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGGCTGGGGGAATTACTCTCGCCACGCTAATGAGAGTAATTTTATTGATATGAATCTCCTGATACGTTACACCCGTCCAAACGCCAGCCGCGGCACATGCACCGTCCCAGGCTTCT‑‑‑CAGCAGCACTGCCATCAATTTGTGTCACCCGCAgag                                                                                                       <  1:201291/201‑3 (MQ=255)                                                                                                                                                                           gNCAATAACCTTCCCGAAAAAAAGTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAATGAGAGTAATTTTATTGATATTAATCTCATGATCCTTTACCCCCGTCCAAACTCCAGCCGCTGCACATTCa                                                                                                                                                             <  2:135849/135‑1 (MQ=255)                                                                                                                                                                                                        tataAAGTCTGGGGGAATTACTCTCGCCACGTTAATGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTGCACATTCACCATCCCAGGCTTCT‑‑‑CAGCAGCACTTACATCAATTTGTGTCACCCGCAGCGCATATTTTTCATCCAGTGCGATTAACCATTTCAGCAGGTCATTAAACACCACAGGTTCTATc                                         <  1:16384/219‑1 (MQ=255)                                                                                                                                                                                                        tataAAGGCTGGGGGAATTACTCTCGCCACGGTAATGAGAGTAATTCTATTGATATTAATATCCTGATACTTTACCCTCGTCCAAACTNNAGCCGCNNc                                                                                                                                                                    >  2:16384/1‑99 (MQ=255)                                                                                                                                                                                                           aaaGTCTGGGGGAATTACTCTCGCCACGTTAATGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTGCACATTCACCATCCCAGGCTTCT‑‑‑CAGCAGCACTGACATCAATTTGTGTCACCCGCAGCGCATATTTTTCATCCAGTGCGTTTAACCATTTCAGCAGGTCATTAAACACCACAGGTTCTATCCAGACCTGAATATTCTCCCCACGATCGGCTATCCg      <  1:68787/251‑1 (MQ=255)                                                                                                                                                                                                              gTCTGGGGGAATTACTCTCGACACGTTCATGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTGCACATTCACCATCCCAGGCTTCT‑‑‑CAGCAGAACTGACATCAATTTGTGTCCCCCGCAGCGCATATTTTTCATC‑AGTGCGTTTAACCATTTCAGCAGGTCATTAACCACCACAGGTTCTATCCAGACCTGAATATTCTCCCCACGATCGGCTATCCGCCtg  >  1:177632/1‑251 (MQ=255)                                                                                                                                                                                                                                  ccACGTTAATGAGAGTAATTTGAATTATATTAATCTCCTGATACTTTACCCCCTTCCAAACTCCAGCCGCTGCACATGCACCAGCCCAGGCTTCT‑‑‑CAGCAGCACTGACATCAATTtg                                                                                                                     <  1:84086/117‑1 (MQ=255)                                                                                                                                                                                                                                  ccACGNTCATGNGNNTAATTTTAATGATATTAATNTCCTGATACTTTACCNCCGTNCAAACNCCNg                                                                                                                                                                           >  2:84086/1‑66 (MQ=255)                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                  AATTTGATTGACGAGACGAGGCGAATCAGGTTTAATGCGCCCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTGCACATTCACCATCCCAGGCTTCT‑‑‑CAGCAGCACTGACATCAATTTGTGTCACCCGCAGCGCATATTTTTCATCCAGTGCGTTTAACCATTTCAGCAGGTCATTAAACACCACAGGTTCTATCCAGACCTGAATATTCTCCCCACGATCGGCTATCCGCCTG  >  NC_000913/3110320‑3110776

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑