Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_012971	550,515	C→T	intergenic (+24/‑35)	ECD_RS02675 → / → ECD_RS02680	phage tail tip protein/prophage tail fiber N‑terminal domain‑containing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_012971	550,515	0	C	T	100.0%	47.3 / NA	15	intergenic (+24/‑35)	ECD_RS02675/ECD_RS02680	phage tail tip protein/prophage tail fiber N‑terminal domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (11/4);  total (11/4)

CGCTAAACATGAGCAAGATCATACTGATATCTACTCCTCATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCAGATACGGGCGCCAGAAATGGCGCCTTTTTTATTTGTGGAGTGAATATGGCAGTAC  >  NC_012971/550224‑550559                                                                                                                                                                                                                                                                                                    |                                             cgcTAAACATGAGCAAGATCATACTGATATCTACTCCTCATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAATGGCTCTGGATAATACGATGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCATA‑ACGGGCGTCAGAAATga                                     >  2:288305/1‑299 (MQ=255) cgcTAAACATGAGCAAGATCATACTGATATCTACTCCTCATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACCGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCATA‑AAGGGCGTCAGAAATga                                     >  2:415252/1‑299 (MQ=255)           ggggagggtCATACTGATATCTACTCCTAATGCCGTCTGATGGTGCGGAAAAACGGTGCTGAAATTTCTAACCGAACGGCTCTGGATAATATGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCAACAGCAAGTATCAGCGATTTGCTGGTTGTGTTGGTGAAGAAGGCCACTGCAGGCATCATGATTAGCTGCATTGTATAACC‑ACTAACGGGCGTCAGAAATGACGCAtttttt                           >  2:428297/9‑300 (MQ=255)           gAGCAAGATCATACTGATATCTACTCCTCATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCATA‑ACGGGCGTCAGAAATGACGCCtttttt                           >  1:75849/1‑300 (MQ=255)             gCAAGATCATACTGATATCTACTCCTCATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCATA‑ACGGGCGTCAGAAATGACGCCTTTTTTAt                         <  1:70793/300‑1 (MQ=255)                  aTCATACTGATATCTACTCCTCATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCATA‑ACGGGCGTCAGAAATGACGCCTTTTTTAttgca                     >  1:635228/1‑296 (MQ=255)                         tGATCTCTACTCCTCATGCCGTCTGATAGTACGAAAAAACAGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCATA‑ACGGGCGTCAGAAATGACGCCTTTTTTAttgcagaaaagcg             <  2:152403/300‑12 (MQ=255)                          gATATCTACTCCTCATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATNAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCATA‑ACGGGCGTCAGAAATGACGCCttttttcttgcagaaaagcga            >  2:622932/1‑285 (MQ=255)                          gATATCTACTCCTCATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCATA‑ACGGGCGTCAGAAATGACGCCTTTTTTAttgcagaaaagcga            >  1:478215/1‑288 (MQ=255)                               cTACTCCTCATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCCGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCATA‑ACGGGCGTCAGAAATGACGCCTTTTTTAttgcagaacagcgaga          >  2:266299/1‑283 (MQ=255)                               cTACTCCTCATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGNCATCATGATTAGCTGAATTTTATAACCCATA‑ACGGGCGTCAGAAATGACGCCTTTTTTAttgcagaaaagcgagaggt       >  1:172215/1‑283 (MQ=255)                               cTACTCCTCATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCATA‑ACGGGCGTCAGAAATGACGCCTTTTTTAttgcagaaaagcgagaggt       >  1:326755/1‑283 (MQ=255)                               cTACTCCTAATACCGTATAATAGTACGAAAAAACGGTGCTGAAATCTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTTGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAAACCATA‑ACGGGCGTCAGAAATGAAGCCTTTTTTAtcgccgaaaa                >  2:266166/1‑282 (MQ=255)                                      tcATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCATA‑ACGGGCGTCAGAAATGACGCCTTTTTTAttgcataaaagcgagaggtaatta  <  2:502992/298‑23 (MQ=255)                                      tcATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCATA‑ACGGGCGTCAGAAATGACGCCTTTTTTAttgcagaaaagcgagaggtaatta  <  1:110364/298‑23 (MQ=255)                                                                                                                                                                                                                                                                                                    |                                             CGCTAAACATGAGCAAGATCATACTGATATCTACTCCTCATGCCGTCTGATAGTACGAAAAAACGGTGCTGAAATTTATAACCGAACGGCTCTGGATAATACGCTGATATATACGGGTGTTATTGATATGCCTGCAGGCAGTGGTGTAATGACACTGGAATTTTCTGTATCGGCATGGCTGGTAAATGGCTGGTATCCCACAGCAAGTATCAGCGATTTGCTGGTTGTGGTGATGAAGAAAGCCACTGCAGGCATCATGATTAGCTGAATTTTATAACCCAGATACGGGCGCCAGAAATGGCGCCTTTTTTATTTGTGGAGTGAATATGGCAGTAC  >  NC_012971/550224‑550559

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑