Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,245,793	0	C	T	47.4%	1.4 / 20.3	19	M528I (ATG→ATA)	treA	periplasmic trehalase
Reads supporting (aligned to +/- strand):  ref base C (5/5);  new base T (4/5);  total (9/10)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

TGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAGAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGCGTCGTTGCTGACTTAACGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGCATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCGGTGGTGCTGACATCATATTTTTCCACCAGCTTTTTCTCCCGGTCATAGGTGTGCTGAACATTGGTCAGGAAGTGCCAGCTAATGTCCATCGCCACCTCTTTTTGCCCGTAGTTTTGTAATCCTTCTGTCGCGACCCACTGTAACGGTGCCCAGCCATTTGGCGCATC  >  NC_000913/1245547‑1246035                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                   gggCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAGAAAAAACCATAGCTATGGTGTTATCGGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGCGTCGTTGCTGACTTAACGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCAGGCAGATCAAATCCAGTAttt                                                                                                                                                                                                                                                <  2:7765/250‑1 (MQ=255)                                    tGAAAATCCGTCTGTGTAGAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCTGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGCGTCGTTGCTGACTTAACGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGCATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCAt                                                                                                                                                                                                               <  1:126547/249‑1 (MQ=255)                                                   gtAGAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGCGTCGTTGCTGACTTAACGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGCATTTTCATCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCg                                                                                                                                                                                              <  1:197457/251‑1 (MQ=255)                                                                        gtgtTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGCGTCGTTGCTGACTTAACGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGTATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCg                                                                                                                                                                         >  1:197657/1‑251 (MQ=255)                                                                                                cGGAGCAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTACGGTGTGGGTTGTGCCTCTTTGGTTGAGGGATGCGTCGTTGCTGCCTTAACGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGCATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTAGCCACCGCCGCCCCCCGTTCCGGTGGTGCTGAAATCATATTTTTcc                                                                                                                                                 >  2:139859/1‑251 (MQ=255)                                                                                                                            aaGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGTTTGATGGTTGCGTCGTTGCTGACTTAACGGTCGGACGGGTCGCCGGAACAGTGTCACCCGGTTGCTCTTTCGGGCAGATCAAATCCAGCATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCTCCCCCCGTTCCTGTGGTGCTGACATCATATTTTTCCACCAGCTTTTTCTCCCGGTCATAGgtgt                                                                                                                     <  2:115580/251‑1 (MQ=255)                                                                                                                                   ggTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGCGTCGTTGCTGACTTAACGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGCATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCg                                                                                                                                                                         <  1:276125/192‑1 (MQ=255)                                                                                                                                   ggTTAAGGTGTGGGTTGTGCCTCTATGGTTGAGGGTTGAGTCGTTGCTGACTTAACGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGCATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCg                                                                                                                                                                         >  2:276125/1‑192 (MQ=255)                                                                                                                                                gTTGTGCCGCTTTGGTTGAGGGTTGCGTCGGTGCTGACTTAACGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGTATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCGGTGGTGCTGACATCATATTTTTCCACCAGCTTTGTCGCCCGGTCATAGGTGTGCTGAACATTGGTCAGGAAg                                                                                                 <  1:27917/251‑1 (MQ=255)                                                                                                                                                   gtgCCTCTTTGGTTGAGGGTTGCGTCGTTGCTGCCTTAACGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGCATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCGGTGGTGCTGACATCATATTTTTCCACCAGCTTTTTCTCCCGGACATCGGTGTGCTGAACATTGGTCAGGAAGTGc                                                                                              >  2:56721/1‑251 (MQ=255)                                                                                                                                                                  aGGGTTGCGTCGTTGCTGACTTAACGGTCGGACGCGTCGCGGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGTATTTTCATCGCCACGCCATTGGTCCAGACAAAGCCATCCTGTAATGGATATCCGCTTCCGCCGCTCACCGTTCCGGTGGTGCTGACATCATATTTTTCCCCCAGCTTTTTCTCCCGGTCATAGGTGTGCTGCACATTGGTCAGGAAGTGCCAGCTAATGTCCATc                                                                               <  1:56721/251‑1 (MQ=255)                                                                                                                                                                               ggCTGACTTATCGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGTATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCGGTGGTGCTGACATCATATTTTTCCACCATCTTTTTCTCCCTGTCATAGGTGTGCTGAACATTGGTCAGGAAGTGCCAGCTAATGTCCATCGCCACCTCttttt                                                                  <  2:302388/250‑1 (MQ=255)                                                                                                                                                                                 cTGACTTAACGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGTATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCGGTGGTGCTGACATCATATTTTTCCACCAGCTTTTTCTCCCGGTCATAGGTGTGCTGAACATTGGTCAGGAAGTGCCAGCTAATGTCCATCGCCACCTCTTTTTGc                                                                >  2:259233/1‑251 (MQ=255)                                                                                                                                                                                         aCGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGTATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCGGTGGTGCTGACATCATATTTTTCCACCAGCTTTTTCTCCCGGTCATAGGTGTGCTGAACATTGGTCAGGAAGTGCCAGCTAATGTCCATCGCCACCTCTTTTTGCCCGTAGtt                                                        <  1:259233/251‑1 (MQ=255)                                                                                                                                                                                                             aaCATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGTATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCGGTGGTGCTGACATCATATTTTTCCACCAGCTTTTTCTCCCGGTCATAGGTGTGCTGAACATTGGTCAGGAAGTGCCAGCTAATGTCCATCGCCACCTCTTTTTGCCCGTAGTTTTGTAATCCTTCTGTcgcg                                     >  1:96526/1‑250 (MQ=255)                                                                                                                                                                                                               cATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGCATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCGGTGGTGCTGACATCATATTTTTCCACCAGCTTTTTCTCCCGGTCATAGGTGTGCTGAACATTGGTCAGGAAGTGCCAGCTAATGTCCATCGCCACCTCTTTTTGCCCGTAGTTTTGTAATCCTTCTGTCGCGAcc                                  >  2:202732/1‑251 (MQ=255)                                                                                                                                                                                                                              gCTCTTTCGGGCAGATCAAATCCAGTATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCGGTGGTGCTGACATCATATTTTTCCACCAGCTTTTTCTCCCGGTCATAGGTGTGCTGAACATTGGTCAGGACGTGCCAGCTAATGTCCATCGCCACCTCTTTTTGCCCGTAGTTTTGTAATCCTTCTGTCGCGACCCACTGTAACGGTGcc                   >  2:232320/1‑251 (MQ=255)                                                                                                                                                                                                                                     cGGGCAGATCAAATCCAGCATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCGGTGGTGCTGACATCATATTTTTCCACCAGCTTTTTCTCCCGGTCATAGGTGTGCTGAACATTGGTCAGGAAGTGCCAGCTAATGTCCATCGCCACCTCTTTTTGCCCGTAGTTTTGTAATCCTTCTGTCGCGACCCACTGTAACGGTGCCCAGCCAt            <  1:202732/251‑1 (MQ=255)                                                                                                                                                                                                                                               aaaTCCAGCCTTTTCAGCGTCACACAAATGGTCCAGCAAAAGCCATCCTGTAATGAATCTTCGCCACCGCCGCCCCCCGTTACGGTGGTGCTGACATCATATTTTTCCACCAGCTTTTTCTCCCGGTCATAGGTGTGCTGAACATTGGTCAGGAAGTGCCAGCTAATGTCCATCGCCACCTCTTTTTGCCCGTAGTTTTGTAATCCTTCTGTCGCGCCCCACTGTAACGGTGCCCAGCCATTTGGCGCATc  >  2:293017/1‑251 (MQ=255)                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                   TGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAGAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGCGTCGTTGCTGACTTAACGGTCGGACGCGTCGCCGGAACATTGTCACACGGTTGCTCTTTCGGGCAGATCAAATCCAGCATTTTCAGCGTCACGCCATTGGTCCAGCCAAAGCCATCCTGTAATGGATATTCGCCACCGCCGCCCCCCGTTCCGGTGGTGCTGACATCATATTTTTCCACCAGCTTTTTCTCCCGGTCATAGGTGTGCTGAACATTGGTCAGGAAGTGCCAGCTAATGTCCATCGCCACCTCTTTTTGCCCGTAGTTTTGTAATCCTTCTGTCGCGACCCACTGTAACGGTGCCCAGCCATTTGGCGCATC  >  NC_000913/1245547‑1246035

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑