Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,164,660	G→T	100%	intergenic (+10/+107)	PP_3665 → / ← PP_3666	AraC family transcriptional regulator/MHS family metabolite MFS transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	4,164,660	0	G	T	100.0%	127.4 / NA	38	intergenic (+10/+107)	PP_3665/PP_3666	AraC family transcriptional regulator/MHS family metabolite MFS transporter
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (19/19);  total (19/19)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TGCTGCGCAGCGACGTGCAAGTGCGTGAGGTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACAT  >  NC_002947/4164514‑4164805                                                                                                                                                   |                                                                                                                                                  tgctgcGCAGCGACGTGCAAGTGCGTGAGGTAGCGCTGGCCTGTGACTTCAGTTAGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTCTCGCCTTTAGTGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGt                                                                                                                                                 >  8:58450/1‑149 (MQ=255)     gcgcAGCGACGTGCAAGTGCGTGAGGTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTg                                                                                                                                             >  1:140639/1‑149 (MQ=255)      cgcAGCGACGTGCAAGTGCGTGAGGTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTg                                                                                                                                             <  2:300375/148‑1 (MQ=255)               gTGCAAGTGCGTGAGGTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTgg                                                                                                                                   >  1:125053/1‑149 (MQ=255)               gTGCAAGTGCGTGAGGTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTgg                                                                                                                                   >  7:10747/1‑149 (MQ=255)                  cAAGTGCGTGAGGTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGcc                                                                                                                                 <  3:365527/148‑1 (MQ=255)                  cAAGTGCGTGAGGTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCct                                                                                                                                <  4:60214/149‑1 (MQ=255)                           gAGGTAGCGCTGTCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTg                                                                                                                                    <  8:355895/136‑1 (MQ=255)                           gAGGTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTg                                                                                                                                    >  7:355895/1‑136 (MQ=255)                                   gcTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCcg                                                                                                               >  6:227109/1‑149 (MQ=255)                                         cTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCTTGCCcgcgaaga                                                                                                         <  5:252241/149‑5 (MQ=255)                                               cTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGca                                                                                                   >  6:378949/1‑149 (MQ=255)                                                ttCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGca                                                                                                   >  6:35417/1‑148 (MQ=255)                                                 tCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCTTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGcac                                                                                                  >  2:145331/1‑148 (MQ=255)                                                    gTTCGCCTGCGCATTTTTTCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCg                                                                                              <  7:272523/149‑1 (MQ=255)                                                        gCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCGTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCggtgg                                                                                          <  5:68148/149‑1 (MQ=255)                                                          cTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTc                                                                                        >  7:250113/1‑149 (MQ=255)                                                                  ttttCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATAGGTGGTCCGCCACAg                                                                                >  7:257773/1‑149 (MQ=255)                                                                       cAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGt                                                                           >  6:383893/1‑149 (MQ=255)                                                                        aaGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGtt                                                                          <  2:336240/149‑1 (MQ=255)                                                                         agagTTATAGCCGGTTCTTCGGGCTGGCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTTGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTg                                                                         <  6:368257/149‑1 (MQ=255)                                                                                taGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGACCTCTTCGCgg                                                                                                                        <  3:260121/95‑1 (MQ=255)                                                                                taGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGACCTCTTCGCgg                                                                                                                        >  4:260121/1‑95 (MQ=255)                                                                                  gCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGt                                                                <  5:378949/149‑1 (MQ=255)                                                                                  gCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGt                                                                <  5:383893/149‑1 (MQ=255)                                                                                       ttcttcGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTgag                                                             >  1:239492/1‑147 (MQ=255)                                                                                            cGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGc                                                      >  2:370956/1‑149 (MQ=255)                                                                                             gggCTGTCGCCTTTAGGTGAGCGGATGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCAGTGCTGGCCTCTTCGCGGACAAGCCCGCGCCTACACGCACATCGTTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGc                                                      <  6:243135/148‑1 (MQ=39)                                                                                             gggCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGc                                                      <  5:24249/148‑1 (MQ=255)                                                                                              ggCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCa                                                    <  5:227109/149‑1 (MQ=255)                                                                                              ggCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCa                                                    <  8:250113/149‑1 (MQ=255)                                                                                                             gggAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTaa                                     >  2:81207/1‑149 (MQ=255)                                                                                                                       gcAGGCCTCTCTCCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAggg                           >  1:285877/1‑149 (MQ=255)                                                                                                                                tctcCACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTg                    <  1:370956/147‑1 (MQ=255)                                                                                                                                    cACTGAGTTGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGt              <  1:145331/149‑1 (MQ=255)                                                                                                                                           ttGGGTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGa       <  5:35417/149‑1 (MQ=255)                                                                                                                                              ggTCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGaca     >  7:125564/1‑148 (MQ=255)                                                                                                                                                tCATGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACAt  >  5:204819/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                  TGCTGCGCAGCGACGTGCAAGTGCGTGAGGTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACAT  >  NC_002947/4164514‑4164805

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑