Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,297,749	C→A	19.0%	L133M (CTG→ATG)	PP_1128 →	OmpA family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,297,749	0	C	A	19.0%	54.9 / 3.2	21	L133M (CTG→ATG)	PP_1128	OmpA family protein
Reads supporting (aligned to +/- strand):  ref base C (7/10);  new base A (2/2);  total (9/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.34e-01

AGGGGCCGGTGGTACCGAAGATCGATCAGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGATCGCCCGAACATGTTGCTGCCCATGTCCCTGGGCCCGATTACCCGCGTTGCCAAGACTGTCGAAGGCGACCC  >  NC_002947/1297648‑1297882                                                                                                      |                                                                                                                                      aGGGGCCGGTGGTACCGAAGATCTATCAGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGcgtc                                                                                                                              >  2:380368/1‑111 (MQ=255) aGGGGCCGGTGGTACCGAAGATCTATCAGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGcgtc                                                                                                                              <  1:380368/111‑1 (MQ=255)    ggCCGGTGGTACCGAAGATCGATCAGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGATGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGcc                                                                                                  >  2:14070/1‑136 (MQ=255)    ggCCGGTGGTACCGAAGATCGATCAGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGATGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGcc                                                                                                  >  2:11557/1‑136 (MQ=255)      ccGGTGGTACCGAAGATCGATCAGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCgg                                                                                                <  1:213190/136‑1 (MQ=255)          tggtACCGAAGATCGATCAGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGCGTCGGGACAACGTGCTGGCGGTAACCCTGCCGGGGGa                                                                                            >  2:503300/1‑136 (MQ=255)           ggtACCGAAGATCGATCAGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGAc                                                                                           <  1:428420/136‑1 (MQ=255)           ggtACCGAAGATCGATCAGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGAc                                                                                           <  1:452422/136‑1 (MQ=255)           ggtACCGAAGATCGATCAGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGAc                                                                                           <  1:138994/136‑1 (MQ=255)                   aGATCGATCAGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTa                                                                                   <  1:413964/136‑1 (MQ=255)                            aGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGa                                                                          >  1:208558/1‑136 (MQ=255)                                         ggCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGATGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGATCGCCCGAACATg                                                             <  1:14070/136‑1 (MQ=255)                                         ggCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGATGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGATCGCCCGAACATg                                                             <  1:11557/136‑1 (MQ=255)                                              ggctggACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGATCGCCCGAACATGTtgct                                                        >  2:294603/1‑136 (MQ=255)                                                                       gcgcGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGATCGCCCGAACATGTTGCTGCCCATGTCCCTGGGCCCGATTAcc                               >  2:287075/1‑136 (MQ=255)                                                                                     aGGACAGCAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGATCGCCCGAACATGTTGCTGCCCATGTCCCTGGGCCCGATTACCCGCGTTGCCAAGAc                 >  2:292673/1‑136 (MQ=255)                                                                                            cAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGATCGCCCGAACATGTTGCTGCCCATGTCCCTGGGCCCGATTACCCGCGTTGCCAAGACTGTCGaa          <  1:294603/136‑1 (MQ=255)                                                                                            cAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGATCGCCCGAACATGTTGCTGCCCATGTCCCTGGGCCCGATTACCCGCGTTGCCAAGACTGTCGaa          <  2:247123/136‑1 (MQ=255)                                                                                            cAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGATCGCCCGAACATGTTGCTGCCCATGTCCCTGGGCCCGATTACCCGCGTTGCCAAGACTGTCGaa          <  2:249604/136‑1 (MQ=255)                                                                                            cAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGATCGCCCGAACATGTTGCTGCCCATGTCCCTGGGCCCGATTACCCGCGTTGCCAAGACTGTCGaa          <  2:328102/136‑1 (MQ=255)                                                                                             aaGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCATGAACGCCCGAACATGTTGCTGCCGATGTCCCTGGGCCCGATTACCCGCGTTGCCAAGACTGTCGAAg         >  1:100732/1‑136 (MQ=255)                                                                                                    agctggagcGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGATCGCCCGAACATGTTGCTGCCCATGTCCCTGGGCCCGATTACCCGCGTTGCCAAGACTGTCGAAGGCGAccc  <  2:451052/136‑1 (MQ=255)                                                                                                      |                                                                                                                                      AGGGGCCGGTGGTACCGAAGATCGATCAGAAGGCCACGCAGGCCTGGCTGGACGAATACGAGCCCAAGCTGCGCGAAGCGATCAAGGACAGCAAGCTGGAGCTGGAGCGTCGTGACAACGTGCTGGCGGTAACCCTGCCGGTGGACAGCTCGTACAATCCTGATCGCCCGAACATGTTGCTGCCCATGTCCCTGGGCCCGATTACCCGCGTTGCCAAGACTGTCGAAGGCGACCC  >  NC_002947/1297648‑1297882

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