Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	97,594	A→C	10.8%	intergenic (+23/+13)	PP_0090 → / ← PP_0091	hypothetical protein/putative lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	97,594	0	A	C	10.8%	111.2 / 3.8	52	intergenic (+23/+13)	PP_0090/PP_0091	hypothetical protein/putative lipoprotein
Reads supporting (aligned to +/- strand):  ref base A (23/22);  new base C (2/4);  total (25/27)
Fisher's exact test for biased strand distribution p-value = 6.68e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTTCGTCCTACACGCTGGAGATCGTGCCCAACAGCGAGGTCAAGGACCAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCTTGAAGTTGTC  >  NC_002947/97456‑97738                                                                                                                                            |                                                                                                                                                  tttCGTCCTACACGCTGGAGATCGTGCCCAACAGCGAGGTCAAGGACCAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCTTCGCAGccccgg                                                                                                                                         <  3:90995/149‑3 (MQ=255)      tCCTACACGCTGGAGATCGTGCCCAACAGCGAGGTCAAGGACCAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCa                                                                                                                                    >  3:53186/1‑149 (MQ=255)        cTACACGCTGGAGATCGTGCCCAACAGCGAGGTCAAGGACCAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCAc                                                                                                                                   <  3:296532/148‑1 (MQ=255)                      tCGTGCCCAACAGCGAGGTCAAGGACCAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACt                                                                                                                    >  2:66083/1‑149 (MQ=255)                        gTGCCCAACAGCGAGGTCAAGGACCAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTc                                                                                                                  >  6:270593/1‑149 (MQ=255)                             cAACAGCGAGGTCAAGGACCAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATAAGAAAAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACAAACACGGGATGAAGAACACTTCGCTAg                                                                                                             >  7:227853/1‑149 (MQ=255)                                cAGCTAGGTCAAGGACAAGAACATGGTCGTCGGCACCTGCGATGGCGGGACTAATAATATCATCTATCAGAAGAACGATCGATACGCATCTTGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGc                                                                                                           <  1:281456/149‑1 (MQ=255)                                 aGCGAGGTCAAGGACCAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCCCGGGATGCAGAACACTTCGCTAGGCTc                                                                                                         >  7:336994/1‑149 (MQ=255)                                   cGAGGTCAAGGACCAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCCCGGGATGCAGAACACTTCGCTAGGCTCGt                                                                                                       >  6:175878/1‑149 (MQ=255)                                    tcggacAAGGACCAGAACTTGGGCGTCGGGACCTGCGATGGAGGGTCGAAGAAGATCATCTATCAGAAGACCGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGtt                                                                                                      <  8:336994/144‑1 (MQ=255)                                          acggACCATAACATGGTCGTCGGTACCTGCTATGGCGGGACGAAGAAGATCATCTATCATAAGAACGATCTATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGtt                                                                                                      <  6:305549/141‑1 (MQ=255)                                               ccAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCt                                                                                           >  2:235855/1‑149 (MQ=255)                                                cAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCtt                                                                                          >  3:52612/1‑149 (MQ=255)                                                cAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCtt                                                                                          <  1:66083/149‑1 (MQ=255)                                                 aGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTg                                                                                         <  8:264999/149‑1 (MQ=255)                                                  gAACATGGTCGGGGGGACCTGCGAGGGCGGGACGAACAATATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCGGCGACGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGc                                                                                        <  4:53186/149‑1 (MQ=255)                                                    tcATGGTCGTCGGGACCTGCGATGGCGGGACGAATAAGATCATCTATCAGAAGATCGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCg                                                                                       <  1:263235/147‑1 (MQ=255)                                                         gtcgtcGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGc                                                                                 <  3:171458/149‑1 (MQ=255)                                                         ggggtggggACCTGCTTTGGCGGTACTAATAATATCATCTATCACAACAACTATCTATATCCATC‑CGGGCCGGGGGCTGCTATTCTGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGc                                                                                 <  8:227853/143‑1 (MQ=255)                                                             tcgGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCa                                                                             <  5:270593/149‑1 (MQ=255)                                                                     tGCGATGGCGGGCCGACGAAGATCATCTATCAGAAGAACGAGCGATACGCATC‑AGGGCCCGGGGCGGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCgg                                                                                      <  4:320496/132‑1 (MQ=255)                                                                     tGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCgg                                                                                      >  3:320496/1‑132 (MQ=255)                                                                       cGATGGCGGTACTAAGAATATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATagcagc                                                                    <  2:108354/148‑1 (MQ=255)                                                                       cGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAgcagca                                                                   >  5:86402/1‑149 (MQ=255)                                                                                 aCGAACAAGATCATCTATCAGAACAACGATCAAAAAGCATC‑CGGGCCCGGGGCTGCTACGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTc                                                         <  4:158199/149‑1 (MQ=255)                                                                                         gaTCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑g                                                >  7:256103/1‑149 (MQ=255)                                                                                             atcTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCCCACTCACGGGATGCAGAACACTTAGCTAGGGGCGTTAACCACCACCGTGCGGTTGGCGTCATATATCAGCACCAGCGGCTCCATAACC‑Cgcgc                                            >  6:8080/1‑149 (MQ=255)                                                                                                tATCAGAAGAACGAACGATAAGCATC‑AGGGCCCGGGGCAGCGAAGCAGCACCACAATCACGCGATTCAGAACACATAGCTAGGCTCGATCACCACCCCCATGCGGTTGGc                                                                                 >  5:191344/1‑110 (MQ=255)                                                                                                tATCAGAAGAACCATCGTTAAGCATC‑CGGGCCCGGGGCGGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGc                                                                                 <  6:191344/110‑1 (MQ=255)                                                                                                 aTCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCcgc                                        >  8:100620/1‑149 (MQ=255)                                                                                                     gaagaaCGATCGATAAGCATC‑AGGGCCCGGGGGAGGGGAGGAGCCCCCCACTCACGGGGTGGAGAACACATGGCGAGGGGCGTTAACCACCACCGTGGCGGTGGGGGGAAATAGCACCCCCAGGCGGTCCATCACC‑CGCccccccccgt                                    >  4:327203/1‑143 (MQ=255)                                                                                                     gaagaaCGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑g                                                <  5:74088/137‑1 (MQ=255)                                                                                                     gaagaaCGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑g                                                >  6:74088/1‑137 (MQ=255)                                                                                                      aagaaCGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTc                                   >  8:264992/1‑149 (MQ=255)                                                                                                        gaaCGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTc                                   >  5:13969/1‑147 (MQ=255)                                                                                                          agcatctatAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAgg                               <  3:327203/146‑1 (MQ=255)                                                                                                           cgatcgatAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACGCACGGGATGCAGAACACTTAGCAAGGCTCGTTCACCACCACCATGCGGTTGGCGGAAAATAGCAGCACCAGCGGCAACAAAACC‑CGCGCCCGCCCGTCCAGGc                              >  6:114503/1‑149 (MQ=255)                                                                                                                 atAAGCATC‑AGGGCCCGGGGCTGCGCAGCAGCCCCACCCGCACGGGATGCAGAACCCTTCGCTAGGCTCGGTCACCACCCCCTGGCGGGTGGCGTCATCTAGCCGCCCCTGCGGCGCCCTCACC‑GGCGCCCGCGCTTCCCGGCGATAgc                        >  5:347753/1‑149 (MQ=255)                                                                                                                     gCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTc                    <  6:86402/149‑1 (MQ=255)                                                                                                                             ggCCCGGGGCGGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACCAGGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGc              <  1:235855/149‑1 (MQ=255)                                                                                                                               tgtggggCTGCTTCGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCtt           >  1:207050/4‑149 (MQ=255)                                                                                                                               cccGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCtt           >  4:265541/1‑149 (MQ=255)                                                                                                                                  ggggCTGCTAAGCCGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCTTGaa        <  7:304135/149‑1 (MQ=255)                                                                                                                                  ggggCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCTTGaa        <  5:8080/149‑1 (MQ=255)                                                                                                                                  ggggCGGCGAACCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCTTGaa        <  4:266790/149‑1 (MQ=255)                                                                                                                                   gggCTGCTTCGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCTTGAAg       >  2:1724/1‑149 (MQ=255)                                                                                                                                   gggCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCTTGAAg       <  7:100620/149‑1 (MQ=255)                                                                                                                                   gggCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCTTGAAg       <  6:13969/149‑1 (MQ=255)                                                                                                                                     ccTGCGACGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCTTGAAGtt     <  6:217949/148‑1 (MQ=255)                                                                                                                                         cGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCCGGCGCTAGCGCTCGCCGGCCTTGAAGTTGTc  >  8:298036/1‑148 (MQ=255)                                                                                                                                          gAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCTTGaa        >  7:60958/1‑141 (MQ=255)                                                                                                                                          gAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCTTGaa        <  8:60958/141‑1 (MQ=255)                                                                                                                                            |                                                                                                                                                  TTTCGTCCTACACGCTGGAGATCGTGCCCAACAGCGAGGTCAAGGACCAGAACATGGTCGTCGGGACCTGCGATGGCGGGACGAAGAAGATCATCTATCAGAAGAACGATCGATAAGCATC‑AGGGCCCGGGGCTGCGAAGCAGCCCCACACTCACGGGATGCAGAACACTTCGCTAGGCTCGTTCACCACCACCTTGCGGTTGGCGTCATATAGCAGCACCTGCGGCTCCATCACC‑GGCGCCCGCGCTTCCAGGCGATAGCGCTCGCCGGCCTTGAAGTTGTC  >  NC_002947/97456‑97738

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: ‑