Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	BS168_reference_genome	557,865:1	+T	100%	intergenic (+416/‑8)	yddT → / → ydzN	putative exported phage protein/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	BS168_reference_genome	557,865	1	.	T	100.0%	106.1 / NA	31	intergenic (+416/‑8)	yddT/ydzN	putative exported phage protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base T (17/14);  total (17/14)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TGAAAGTAATGATTTGTAGGATCAGTTAAGAAAGGTTTAAGATTAGATATTGAAAAATTTTATATATTTTCAATAAAATACTGGTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAG‑TTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCAAGAAGTCAGTACTACTCGTTTAATAATAGCTTCTGTAATTGTGTTG  >  BS168_reference_genome/557729‑557998                                                                                                                                          |                                                                                                                                      tgAAAGTAATGATTTGTAGGATCAGTTAAGAAAGGTTTAAGATTAGATATTGAAAAATTTTATATATTTTCAATAAAATACTGGTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAG‑tt                                                                                                                                     <  8:74521/139‑1 (MQ=255)   aaaGTAATGATTTGTAGGATCAGTTAAGAAAGGTTTAAGATTAGATATTGAAAAATTTTATATATTTTCAATAAAATACTGGTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAG‑tttt                                                                                                                                   >  2:219089/1‑139 (MQ=255)       tAATGATTTGTAGGATCAGTTAAGAAAGGTTTAAGATTAGATATTGAAAAATTTTATATATTTTCAATAAAATACTGGTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAG‑ttttttaa                                                                                                                               <  3:137333/139‑4 (MQ=255)                                             aGATATTGAAAAATTTTATATATTTTCAATAAAATACTGGTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTAtag                                                                                           >  5:34610/1‑138 (MQ=255)                                                  ttGAAAAATTTTATATATTTTCAATAAAATACTGGTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCAt                                                                                     <  5:24843/139‑1 (MQ=255)                                                    gAAAAATTTTATATATTTTCAATAAAATACTGGTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCAtt                                                                                    <  6:220723/138‑1 (MQ=255)                                                    gAAAAATTTTATATATTTTCAATAAAATACTGGTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCAtt                                                                                    <  8:207476/138‑1 (MQ=255)                                                      aaaaTTTTATATATTTTCAATAAAATACTGGTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTggg                                                                                 <  8:41569/139‑1 (MQ=255)                                                              atatatTTTCAATAAAATACTGGTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAata                                                                          <  5:34446/138‑1 (MQ=255)                                                                                  tGGTACTATAATAAATGTATAAAGATTGTATGGAGATGTAATTAATAAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCATTGTTGTTTGTATAGTAGCATTCGGATCAATATATGGTTATAATTTATTTAc                                                      >  6:203836/1‑138 (MQ=255)                                                                                  tGGGACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTAc                                                      >  7:165401/1‑138 (MQ=255)                                                                                    gTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTaa                                                   >  4:54998/1‑139 (MQ=255)                                                                                    gTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATATACTaa                                                   >  8:176010/1‑139 (MQ=255)                                                                                        tataATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCaa                                               <  6:184132/139‑1 (MQ=255)                                                                                        tataATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCaa                                               <  6:34610/139‑1 (MQ=255)                                                                                         ataataAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAAcc                                                 >  7:41211/1‑136 (MQ=255)                                                                                            ataaATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCaagaag                                           >  5:160364/1‑139 (MQ=255)                                                                                            ataaATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCaagaag                                           >  2:47928/1‑139 (MQ=255)                                                                                             taaATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCAAGAAGt                                          <  1:219089/139‑1 (MQ=255)                                                                                                    ataCAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCAAGAAGTCAGtac                                    >  4:29859/1‑138 (MQ=255)                                                                                                     taCAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTggg                                                                                 >  6:1504/1‑92 (MQ=255)                                                                                                     taCAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTggg                                                                                 <  5:1504/92‑1 (MQ=255)                                                                                                     taCAGATTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCAAGAAGTCAGtacta                                  <  6:160364/139‑1 (MQ=255)                                                                                                          aTTGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCAAGAAGTCAGTACTACTCGt                             >  4:47037/1‑139 (MQ=255)                                                                                                            tGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTa                                                       >  1:103265/1‑111 (MQ=255)                                                                                                            tGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTa                                                       <  2:103265/111‑1 (MQ=255)                                                                                                            tGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCAAGAAGTCAGTACTACTCGtt                            >  3:83004/1‑138 (MQ=255)                                                                                                            tGTATGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGGTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCAAGAAGTCAGTACTACTCGtt                            <  3:66340/138‑1 (MQ=255)                                                                                                               aTGGAGATGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTACCCAAGAAGTCAGTACTACTCGTTtaa                         >  8:24293/1‑138 (MQ=255)                                                                                                                    gaTGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCAAGAAGTCAGTACTACTCGTTTAATAATAg                   >  4:31357/1‑139 (MQ=255)                                                                                                                    gaTGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACAAAGAAGTCAGTACTACTCGTTTAATAATAg                   >  7:145701/1‑139 (MQ=255)                                                                                                                     aTGTAATTAATTAAAAAGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCAAGAAGTCAGTACTACTCGTTTAATAATAGc                  <  7:136573/139‑1 (MQ=255)                                                                                                                                  aaaaGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTATCCAAGAAGTCAGTACTACTAGTTTAATAATAGCTTCTGAAAttgtg     >  8:129649/1‑139 (MQ=255)                                                                                                                                     aGGAGTTTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCAAGAAGTCAGTACTACTCGTTTAATAATAGCTTCTGTAAttgtgttg  <  3:29859/139‑1 (MQ=255)                                                                                                                                          |                                                                                                                                      TGAAAGTAATGATTTGTAGGATCAGTTAAGAAAGGTTTAAGATTAGATATTGAAAAATTTTATATATTTTCAATAAAATACTGGTACTATAATAAATGTATACAGATTGTATGGAGATGTAATTAATTAAAAAGGAG‑TTTTTAATTGCGTTGGAGTAAATGGTTCAATGTTTTTTGTATAGTAGCATTGGGATCAATATATGGTTATAAATTATTTACTAACCAAGAAGTCAGTACTACTCGTTTAATAATAGCTTCTGTAATTGTGTTG  >  BS168_reference_genome/557729‑557998

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑