Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	2,458,100	C→G	8.9%	intergenic (+172/‑33)	PP_2150 → / → sthA	thiamine biosynthesis lipoprotein/pyridine nucleotide transhydrogenase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	2,458,100	0	C	G	8.9%	131.7 / 3.4	45	intergenic (+172/‑33)	PP_2150/sthA	thiamine biosynthesis lipoprotein/pyridine nucleotide transhydrogenase
Reads supporting (aligned to +/- strand):  ref base C (22/19);  new base G (2/2);  total (24/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.27e-01

GCCAGGGAATGGGTGAAGCATATGTAGTGCGGGCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGTGAAGGCGCGGCAATGAACGCCGCCAAAGCAGGGCGCAAGGTAGCGATGGTCG  >  NC_002947/2457952‑2458235                                                                                                                                                     |                                                                                                                                        gccAGGGAATGGGTGAAGCATTTGTCGTGCGGGCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGAcc                                                                                                                                         <  3:26472/149‑1 (MQ=255)   cAGGGAATGGGTGAAGCATATGTAGTGCGGGCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCAAGCCACGGt                                                                                                                                       >  1:312639/1‑149 (MQ=255)           gggTGAAGCATATGTAGTGCGGGCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCGGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTgg                                                                                                                                     <  6:141803/143‑1 (MQ=255)           gggTGAAGCATATGTAGTGCGGGCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTgg                                                                                                                                     >  5:141803/1‑143 (MQ=255)            ggTGAAGCATATGTAGTGCGGGCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCgg                                                                                                                              <  4:261466/149‑1 (MQ=255)             gTGAAGCATATGTAGTGCGGGCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCAAGCCACGGTCGCTCGCggg                                                                                                                             <  2:312639/149‑1 (MQ=255)              tGAAGCATATGTAGTGCGGGCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCAAGCCACGGTCGCTCGCggg                                                                                                                             <  1:271981/148‑1 (MQ=255)                    atatGTAGTGCGGGCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCg                                                                                                                               >  4:228298/1‑140 (MQ=255)                    atatGTAGTGCGGGCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCg                                                                                                                               <  3:228298/140‑1 (MQ=255)                               gggCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTAc                                                                                                           <  3:189432/149‑1 (MQ=255)                                 gCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACg                                                                                                          >  1:200353/1‑148 (MQ=255)                                     aaTTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCt                                                                                                                     >  4:254545/1‑133 (MQ=255)                                     aaTTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCt                                                                                                                     <  3:254545/133‑1 (MQ=255)                                     aaTTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGaa                                                                                                                  >  7:244489/1‑136 (MQ=255)                                     aaTTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGaa                                                                                                                  <  8:244489/136‑1 (MQ=255)                                          gCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCACCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGt                                                                                                 <  5:223374/148‑1 (MQ=255)                                           ccTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTc                                                                                                >  6:125868/1‑148 (MQ=255)                                                gacgCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCTGCATGATCATGCCCCGCGAGCGACCGTGGCTTGCGTGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAAc                                                                                          <  7:105204/149‑1 (MQ=255)                                                gacgCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCTTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAAc                                                                                          <  7:105201/149‑1 (MQ=255)                                                 acgCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGa                                                                                                               >  4:114434/1‑127 (MQ=255)                                                 acgCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGa                                                                                                               <  3:114434/127‑1 (MQ=255)                                                   gcgACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGtt                                                                                                                       <  3:46953/117‑1 (MQ=255)                                                   gcgACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGtt                                                                                                                       >  4:46953/1‑117 (MQ=255)                                                     gACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTacga                                                                                     >  1:290800/1‑149 (MQ=255)                                                        cAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTacgacg                                                                                   >  1:92652/1‑148 (MQ=255)                                                        cAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTacgacg                                                                                   >  2:203624/1‑148 (MQ=255)                                                        cAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTacgacg                                                                                   >  2:285246/1‑148 (MQ=255)                                                              ttAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAgtggt                                                                            <  2:92652/149‑1 (MQ=255)                                                                            gTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTccggcc                                                              >  6:135626/1‑149 (MQ=255)                                                                             ttCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTccggccc                                                             >  1:43820/1‑149 (MQ=255)                                                                             ttCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTccggccc                                                             >  1:236431/1‑149 (MQ=255)                                                                                aGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTccggcccggc                                                          >  1:250425/1‑149 (MQ=255)                                                                                   gTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCccggccgg                                                       >  8:6397/1‑149 (MQ=255)                                                                                    ttGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCGGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGt                                                      <  2:200353/149‑1 (MQ=255)                                                                                                cACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGTGAAGGCGCGGc                                           >  2:126900/1‑148 (MQ=255)                                                                                                 aCCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGTGAAGGCGCGGCaa                                         <  1:203624/149‑1 (MQ=255)                                                                                                   ccGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGTGAAGGCGCGGCAAt                                        >  2:46401/1‑148 (MQ=255)                                                                                                    cGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGt                                                      <  8:99655/133‑1 (MQ=255)                                                                                                    cGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGt                                                      >  7:99655/1‑133 (MQ=255)                                                                                                               aTGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGTGAAGGCGCGGCAATGAACGCCGCCaaa                           <  5:135626/149‑1 (MQ=255)                                                                                                                  gcgcCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTacg                                                                                      <  6:1703/87‑1 (MQ=255)                                                                                                                  gcgcCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTacg                                                                                      >  5:1703/1‑87 (MQ=255)                                                                                                                      cccGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGTGAAGGCGCGGCAATGAACGCCGCCAAAGCAGGgc                    <  2:43820/149‑1 (MQ=255)                                                                                                                                     ctggcccGCAAGCCACGGTCGCTCGCGGGGCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGTGAAGGCGCGGCAATGAACGCCGCCAAAGCAGGGCGCAAGGTAGCGATgg     >  1:198497/5‑149 (MQ=255)                                                                                                                                          ccGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGTGAAGGCGCGGCATTGAACGCCGCCAAAGCAGGGCGCAAGGTAGCGATGGTCg  >  5:272346/1‑147 (MQ=255)                                                                                                                                          ccGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGTGAAGGCGCGGCAATGAACGCCGCCAAAGCAGGGCGCAAGGTAGCGATGGTCg  <  6:272346/147‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                        GCCAGGGAATGGGTGAAGCATATGTAGTGCGGGCAAAATTGGCCTACGACGCGACCAAGGGTTAATGTGCGCGGCGTTCAGGGTTGATTAGACTGCACCCGAATTTTCTCATGGCGCCCCGGCGGCATGATCGTGCCCCGCGAGCGACCGTGGCTTGCGGGCCAGTTCTGAAGGAGTACGCATGGCTGTCTACAACTACGACGTAGTGGTGCTGGGTTCCGGCCCGGCCGGTGAAGGCGCGGCAATGAACGCCGCCAAAGCAGGGCGCAAGGTAGCGATGGTCG  >  NC_002947/2457952‑2458235

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: ‑