Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000964	2,271,424	T→C	R78R (AGA→AGG)	uvrX ←	lesion bypass phage DNA polymerase; phage SPbeta

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000964	2,271,424	0	T	C	100.0%	91.0 / NA	27	R78R (AGA→AGG)	uvrX	lesion bypass phage DNA polymerase; phage SPbeta
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (12/15);  total (12/15)

AAGTGCAAGCTTACTGAGTAGCATATTGTCTCCAATACCAACTGTGCACATCAAACCAAATTCTCTCCACATGCTGCTTTGGATTGCTTTGGCCATTTCTTCAGGATCTTCTTTTCCTGCATCTAAAAAAGATTCATCAATTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATTCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAACACTACACTTCCCTGTCTATCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACAGAAGCATAAAAGGATTTCATATCGACACAAAGTATATTCTTACGTGGAAATTGTGAGTAATCAATCATTG  >  NC_000964/2271178‑2271659                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                            aaGTGCAAGCTTACTGAGTAGCATATTGTCTCCAATACCAACTGTGCACATCAAACCAAATTCTCTCCACATGCTGCTTTGGATTGCTTTGGCCATTTCTTCAGGATCTTCTTTTCCTGCATCTAAAAAAGATTCATCAATTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTg                                                                                                                                                                                                                                         >  1:254168/1‑251 (MQ=255)          cTTACTGAGTAGCATATTGTCTCCAATACCAACTGTGCACATCAAACCAAATTCTCTCCACATGCTGCTTTGGATTGCTTTGGCCATTTCTTCAGGATCTTCTTTTCCTGCATCTAAAAAAGATTCATCAATTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTc                                                                                                                                                                                                                                  >  2:46025/1‑249 (MQ=255)                 aGTAGCATATTGTCTCCAATACCAACTGTGCACATCAAACCAAATTCTCTCCACATGCTGCTTTGGATTGCTTTGGCCATTTCTTCAGGATCTTCTTTTCCTGCATCTAAAAAAGATTCATCAATTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTAtctc                                                                                                                                                                                                                         <  1:201978/251‑1 (MQ=255)                      cATATTGTCTCCAATACCAACTGTGCACATCAAACCAAATTCTCTCCACATGCTGCTTTGGATTGCTTTTGCCATTTCTTCAGGATCTTCTTTTCCTGCATCTAAAAAAGATTCATCAAGTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTTTGATGAAAAGCTTCATTTGTTGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCACATa                                                                                                                                                                                                                    <  2:135919/251‑1 (MQ=255)                      cATATTGTCTCCAATACCAACTGTGCACATCAAACCAAATTCTCTCCACATGCTGCTTTGGATTGCTTTGGCCATTTCTTCAGGATCTTCTTTTCCTGCATCTAAAAAAGATTCATCAATTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATa                                                                                                                                                                                                                    <  2:152343/251‑1 (MQ=255)                                            gtgCACATCAAACCAAATTCTCTCCACATGCTGCTTTGGATTGCTTTGGCCATTTCTTCAGGATCTTCTTTTCCTGCATCTAAAAAAGATTCATCAATTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTGTTGATTc                                                                                                                                                                                               <  1:77298/250‑1 (MQ=255)                                               cacaTCAAACCAAATTCTCTCCACATGCTGCTTTGGATTGCTTTGGCCATTTCTTCAGGATCTTCTTTTCCTGCATCTAAAAAAGATTCATCAATTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCaa                                                                                                                                                                                            >  1:181778/1‑250 (MQ=255)                                                 caTCAAACCAAATTCTCTCCACATGCTGCTTTGGATTGCTTTGGCCATTTCTTCAGGATCTTCTTTTCCTGCATCTAAAAAAGTTTCATCAATTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGTTTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCaatat                                                                                                                                                                                         >  1:310659/1‑248 (MQ=255)                                                 caTCAAACCAAATTCTCTCCACATGCTGCTTTGGATTGCTTTGGCCATTTCTTCAGGATCTTCTTTTCCTGCATCTAAAAAAGATTCATCAATTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCATTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCGAAAt                                                                                                                                                                                         <  2:45338/251‑1 (MQ=255)                                                 caTCAAACCAAATTCTCTCCACATGCTGCTTTGGATTGCTTTGGCCATTTCTTCAGGATCTTCTTTTCCTGCATCTAAAAAAGATTCATCAATTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAAt                                                                                                                                                                                         <  1:12352/251‑1 (MQ=255)                                                                            gctTTAGATTGCGTTGGGCATTGCTTCAGAATCTTCTTTTCCTGCATCTAAAAAAGATTCATCAATTGAATACGGATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTATTTTCAGGTGAAACTCTGATGAAAAGGTGCAGTAGTTGATTTACAATGTGTATCCTTGGATCTTCAGGTAGCTCAAAGAGTCTCGATCTTGTTTTGATTCGAAAATCTTTCTTGAGTGCAGGAGATGCAgtta                                                                                                                                                              <  2:302223/251‑4 (MQ=255)                                                                                                                                   gATTCATCAATTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTa                                                                                                        >  1:288128/1‑250 (MQ=255)                                                                                                                                                                  tctcAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATAc                                                                         >  1:7966/1‑250 (MQ=255)                                                                                                                                                                       ggAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACAGAAGc                                                                   <  1:280163/251‑1 (MQ=255)                                                                                                                                                                            aaaTCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCGAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTccc                                                                                                                               >  2:106579/1‑186 (MQ=255)                                                                                                                                                                            aaaTCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTccc                                                                                                                               <  1:106579/186‑1 (MQ=255)                                                                                                                                                                                    aaaaCAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACAGAAGCATAAAAGGAttt                                                       <  1:46765/250‑1 (MQ=255)                                                                                                                                                                                     aaaaaGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGTTACAGAAGCATAAAAGGATTTc                                                      >  2:207888/5‑250 (MQ=255)                                                                                                                                                                                      aaCAGCTTTTTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATATTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACTCTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACAGAAGCATAAAAGGATTTCat                                                    <  2:94440/251‑1 (MQ=255)                                                                                                                                                                                         aGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACAGAAGCATAAAAGGATTTCATATc                                                 >  1:14901/1‑251 (MQ=255)                                                                                                                                                                                             ttGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACAGAAGCATAAAAGGATTTCATATCGa                                               <  1:208220/249‑1 (MQ=255)                                                                                                                                                                                              tGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACAGAAGCATAAAAGGATTTCATATCGaca                                             <  1:318015/250‑1 (MQ=255)                                                                                                                                                                                              tGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTCCCGACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACATAAGCATAAAAGGATTTCATATCGaca                                             <  2:92605/250‑1 (MQ=255)                                                                                                                                                                                                                           gCTTCATTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACAGAAGCATAAAAGGATTTCATATCGACACAAAGTATATTCTTACGTGGAAATtgtg                 >  1:147855/1‑249 (MQ=255)                                                                                                                                                                                                                                aTTTGTGGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACAGAAGCATAAAAGGATTTCATATCGACACAAAGTATATTCTTACGTGGAAATTGTGAGTaatc          >  2:283610/1‑251 (MQ=255)                                                                                                                                                                                                                                   tgtgGATTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAATACTACACTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACAGAAGCATAAAAGGATTTCATATCGACACAAAGTATATTCTTACGTGGAAATTGTGAGTaatcaa        <  2:181778/250‑1 (MQ=255)                                                                                                                                                                                                                                        aTTTACAATGTGTATCCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCCAATACTACACTTCCCTGTCTCTCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACAGAAGCATAAAAGGATTTCATATCGACACAAAGTATATTCTTACGTGGAAATTGTGAGTAATCAATCATtg  >  1:235954/1‑251 (MQ=255)                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                            AAGTGCAAGCTTACTGAGTAGCATATTGTCTCCAATACCAACTGTGCACATCAAACCAAATTCTCTCCACATGCTGCTTTGGATTGCTTTGGCCATTTCTTCAGGATCTTCTTTTCCTGCATCTAAAAAAGATTCATCAATTGAATACGTATGGACACATTTCTCAGGAACAAATCTGTAAAACAGCTTTGTAATTTCAGTTGAAACTCTGATGAAAAGCTTCATTTGTGGATTTACAATGTGTATTCTTGGATCTTCAGGTATCTCAAATAGTCTCGATCCTGTTTTGATTCCAAAATCTTTTTTAAGTGCAGGAGATGCAGCTAACACTACACTTCCCTGTCTATCCGTATTCCCTACAACAGCAAGATAGCATGTTAAAGGGTTAAGCCCCATTGTTACAGCCGATACAGAAGCATAAAAGGATTTCATATCGACACAAAGTATATTCTTACGTGGAAATTGTGAGTAATCAATCATTG  >  NC_000964/2271178‑2271659

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑