Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	6,080,988	T→A	8.5%	intergenic (+35/+27)	PP_5332 → / ← PP_5333	hypothetical protein/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	6,080,988	0	T	A	8.5%	133.7 / 3.5	47	intergenic (+35/+27)	PP_5332/PP_5333	hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (23/20);  new base A (2/2);  total (25/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.76e-01

ATGCTGTGCATCGAGACAGCGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAG  >  NC_002947/6080852‑6081125                                                                                                                                          |                                                                                                                                          aTGCTGTGCATCGAGACAGCGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCAAGCCCGCGAaga                                                                                                                               <  5:233158/149‑1 (MQ=255)       tgCATCGTGACAGGGTATGTGTGGGTTGTCCTGGTGGAGTTGTAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCAAGCCCGCGAag                                                                                                                                <  4:342122/142‑1 (MQ=255)         aatggagaCAGCTAATGTGTGGGATGACCTGGTGGAGTTGCAGCCTGGGGCGAGTCATTCGCGGGGCGTCCAGATCGTTTGTTAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCggg                                                                                                                        <  4:34081/144‑1 (MQ=255)                  agagAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTCGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCATGCTATTT‑TTTTACCGGCCTCTTAGCCGGATTGCCCGCGAAGAGGACGGGGCAATTATc                                                                                                               >  8:39471/4‑148 (MQ=255)                  aGCGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATc                                                                                                               >  6:291684/1‑148 (MQ=255)                  aGCGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGACTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATc                                                                                                               >  4:298369/1‑148 (MQ=255)                    cGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCaaa                                                                                                            <  5:291684/149‑1 (MQ=255)                     gAATGTGTGGGATGACCTGGTGGAGGTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCATGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAg                                                                                                           <  7:226898/149‑1 (MQ=255)                       aTGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTCTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAg                                                                                                           <  1:270698/148‑1 (MQ=255)                           gtgGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAgg                                                                                                          >  1:19956/1‑144 (MQ=255)                           gtgGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAgg                                                                                                          <  2:19956/144‑1 (MQ=255)                                   aCCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGTTTGTTAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTcca                                                                                             <  7:120156/149‑1 (MQ=255)                                    ccTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTGTTccac                                                                                            >  6:202480/1‑149 (MQ=255)                                        gggtaGTTGACGCCGGGGGCTATGCTTTCGGTGGGCTTCACGATCGTTTTTTAAAATATGTGCGCCCTGCTCTTT‑TTTTACCGCCCTCTGCGCGGGCTTGCCCGGTAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCaccacc                                                                                        <  8:295466/145‑1 (MQ=255)                                             gTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAAtt                                                                                                                  >  3:81062/1‑118 (MQ=255)                                             gTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAAtt                                                                                                                  <  4:81062/118‑1 (MQ=255)                                              ttGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGc                                                                                                     <  4:256897/130‑1 (MQ=255)                                                gAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCtt                                                                                >  1:74082/1‑149 (MQ=255)                                                   gCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGGTTGCGGGGGATCAGGCCGGGGCTATTTTCAACGTAGGGCGTGTTCCCCCACCGGCACCTTGTc                                                                             >  5:191813/1‑149 (MQ=255)                                                   gCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTc                                                                             >  8:4851/1‑149 (MQ=255)                                                    gcTGGGGCGTGGCATTCGCTGGGCGTCCTGATCGGTTGGTAAAATAGCTGAGCCCTGCTCTTT‑TTTTACCGCCGTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAgg                                                                                                          <  3:155350/118‑1 (MQ=37)                                                    ccTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGACCGCGAAGAGGCCGGGGCAATTATCAAAgg                                                                                                          >  4:155350/1‑119 (MQ=255)                                                          gCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGccc                                                                                                                                      >  4:36892/1‑85 (MQ=255)                                                          gCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGccc                                                                                                                                      <  3:36892/85‑1 (MQ=255)                                                                     gCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGaa                                                                                                                                 >  4:29024/1‑79 (MQ=255)                                                                     gCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGaa                                                                                                                                 <  3:29024/79‑1 (MQ=255)                                                                            gTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAGGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCg                                                    >  5:126069/1‑149 (MQ=255)                                                                                aGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCa                                                <  2:74082/149‑1 (MQ=255)                                                                                              aaTATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCa                                                                         <  8:226429/110‑1 (MQ=255)                                                                                              aaTATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCa                                                                         >  7:226429/1‑110 (MQ=255)                                                                                                     gAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGcc                                                 <  8:78901/127‑1 (MQ=255)                                                                                                     gAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGcc                                                 >  7:78901/1‑127 (MQ=255)                                                                                                       gCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCAtt                                         >  7:248/1‑133 (MQ=255)                                                                                                       gCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCAtt                                         <  8:248/133‑1 (MQ=255)                                                                                                         ccTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCt                        >  4:193131/1‑148 (MQ=255)                                                                                                          cTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCtt                       >  7:150887/1‑148 (MQ=255)                                                                                                          cTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTc                      <  7:39471/149‑1 (MQ=255)                                                                                                             ctctTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGc                   <  7:4851/149‑1 (MQ=255)                                                                                                              tctTT‑TTTTACCGGCCTCTTCGCCGCCTTGCCCGCCAAGAGGACGGGGCAATTAAAAAAGGTCTGCGTATTACAACACCCAAACATAAACTTCAAACACCGCATATTCCGCAACGCCCACATGAATGCAGACCATCTCCAcataaacc                   >  4:11731/1‑141 (MQ=255)                                                                                                                    ttttACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGcc              <  8:150887/148‑1 (MQ=255)                                                                                                                          cGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGAcc       >  7:308949/1‑149 (MQ=255)                                                                                                                            gCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCAtt                                         <  3:10374/113‑1 (MQ=255)                                                                                                                            gCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCAtt                                         >  4:10374/1‑113 (MQ=255)                                                                                                                              ctctTCGCGGGCAAGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCcaca   >  8:285676/1‑149 (MQ=255)                                                                                                                               tctTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAg  >  6:319950/1‑149 (MQ=255)                                                                                                                               tctTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAg  >  6:290463/1‑149 (MQ=255)                                                                                                                               tctTCGCGGGCAAGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAg  >  2:60804/1‑149 (MQ=255)                                                                                                                                          |                                                                                                                                          ATGCTGTGCATCGAGACAGCGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTT‑TTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAG  >  NC_002947/6080852‑6081125

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: ‑