Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,270,933	C→T	P70S (CCG→TCG)	pdeN →	putative c‑di‑GMP phosphodiesterase PdeN

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,270,933	0	C	T	96.2%	60.1 / ‑6.2	26	P70S (CCG→TCG)	pdeN	putative c‑di‑GMP phosphodiesterase PdeN
Reads supporting (aligned to +/- strand):  ref base C (0/1);  new base T (13/12);  total (13/13)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01

CGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCATTGTTGCAGGCGTAATGATTGCGATACTGGTGAGTTGCCTTCAGTTTTTAGTGGCCTGGCATAAGCACGAAGTCAAATACGACACACTGATTACCGACGTACAAAAGTATCTCGATACCTATTTTGCCGACCTGAAATCCACTACTGACCGGCTCCAGCCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTCCGAACGTTTGTGCTGGTGAAAGATAAAAAAACATTCTGTTCATCTGCGACCGGTGAGATGGACATTCCACTCAATGAATTGATTCCGGCGCTCGACATTAATAAAAACGTCGATATGGCGATCTTACCCGGCACGCCGATGGTGCCGAACAAACCCGCA  >  NC_000913/2270700‑2271163                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                       cGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCTAATTTTGGACGTAAGCTCCTGCTTACCTGCATTGTTGCAGGCGTAATGATTGCGATACTGGTGAGTTGCCTTCAGTTTTTAGTGGCCTGGCATAAGCACGAAGTCAAATACGACACACTGATTACCGACGTACAAAAGTATCTCGATACCTATTTTGCCGACCTGAAATCCACTACTGACCGGCTCCAGTCGCTGACCTTAGATAcn                                                                                                                                                                                                                       <  1:131581/251‑2 (MQ=255)              aaTTAACGGAATCATGTTCATACGCGCTCCCAATGTTGGACGTAAGCTCCTGCTTACCTGCATTGTTGCAGGCGTAATGATTGCGATACTGGTGAGTTGCCTTCAGTTTTTAGTGGCCTGGCATAAGCACGAAGTCAAATACGACACACTGATTACCGACGTACAAAAGTATCTCGATACCTATTTTGCCGTCCTGAAATCCTCTACTGACCGGCTCCAGTCGCTGACCTTAGATACCTGCCAGCAAGCTa                                                                                                                                                                                                          <  1:295147/251‑1 (MQ=255)                                      cgcTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCATTTTTGCAGGCGTAATGATTGCGATACTTGTGAGTTGCCTTCATTTTTTAGGGGCCTGGCATAAGCACGAAGTCAAATACGACACACTGATTACCGCCGTACAAAAGCATCTCGATCCCTATTTTGCCGACCTGAAATCCACTACTGCCCGGCTCCAGCCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAg                                                                                                                                                                                  <  1:477200/251‑1 (MQ=255)                                        cTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCATTGTTGCAGGCGTAATGATTGCGATACTGGTGAGTTGCCTTCAGTTTTTAGTGGCCTGGCATAAGCACGAAGTCAAATACGACACACTGATTACCGACGTACAAAAGTATCTCGATACCTATTTTGCCGACCTGAAATCCACTACTGACCGGCTCCAGTCGCTGACCTTAGATan                                                                                                                                                                                                                        <  1:300091/211‑2 (MQ=255)                                              aTTTTGGACGTAAGCTCCTGCTTACCTGCATTGTTGCAGGCGTAATGATTGCGATACTGGTGAGTTGCCTTCAGTTTTTAGTGGCCTGGCATAAGCACGAAGTCAAATACGACACACTGATTACCGACGTACAAAAGTATCTCGATACCTATTTTGCCGACCTGAAATCCACTACTGACCGGCTCCAGTCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAgn                                                                                                                                                                          <  1:100889/251‑2 (MQ=255)                                                         aaGCTCCTGCTTACCTGCATTGTTGCAGTCGTAGTGATTGCGATATTGGTGAGTTGCCTGCAGTTTTTAGTGGCCGGGCATAAGCTCGAAGTTAAATACGACACACTGATTACCGACGTACAAAAGTATCTCGATACCTATTTTGCCGACCTGAAAGCCACTACTGACCGGCTCCAGTCGCCGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTcc                                                                                                                                                                <  1:461153/250‑1 (MQ=255)                                                                    tACCTGCATTGTTGCCGGCGTAATGATTGCGATACTGACGAGTTGCCTTCAGTATTTAGTGGCCTGGCATCAGCCCGAAGTCAAATACGACACACTGATTACCGAAGTACAAAACTATCTCGATACCTATTTTGCCGACCTGAAATCCACTACTGACCGGCTCCAGTCGCTGACCTTAGATACATGCCAGCAAGCTACCCCCGAACTAACCACCCGCGCAGCGTTTAGCATGAATGTCCGAACGTTTGTGc                                                                                                                                                    >  1:204410/1‑251 (MQ=255)                                                                    tACCTGCATTGTTGCAGGCGTAATGATTGCGATACTGGTGAGTTGCCTTCAGATTTTAGTGGCCTGGACTAAGCACCAACTCACATACAACCCACAGATTACCGACGTACAACAGTATCTCGATACCTATTTTGCAGACCTGAAATCCTCTACTGACCGGCTCCAGTAGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTCCGAACGTTTGTGc                                                                                                                                                    >  1:498552/1‑251 (MQ=255)                                                                              gttgCAGGCGTAATGATTACGATACTGGTGAGTTGCCTTCAGTTTTTAGTGGCCTGGCATAAGCACGAAGTAAAATACGACACACTGATTACCGACGGACAAAAGTATCTCGATACCTATTTTGCCGACCTGAAATCCACTACTGACCGGCTCCAGTCGCTGCCCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTCCGAACGTTTGTGGTGGTGaa                                                                                                                                             >  1:418804/1‑248 (MQ=255)                                                                                                                              gTGGCCTGGCATAAGCACGAAGTCACATACGACACACTGCTTACCGACGAACAAAAGAATCTCGATACCTATTTTGCCGACCTGAAATCCACTAATGACCGGCTCCCGTCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGACATGACCGCCcgcg                                                                                                                                                                                     >  1:443007/1‑160 (MQ=255)                                                                                                                                       cATAAGCACGAAGTCAAATACGACACACTGATTACCGCAGTACAAAAGTATCTCGATACCTATTTTCCCGACCTGAAATCCACTACTGACCGGCTCCAGTCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTc                                                                                                                                                                 >  1:454085/1‑171 (MQ=255)                                                                                                                                           aGCACGAAGTCAAATCCGACACACTGATTACCGCAGTACAAAAGTATCTCGATACCTATTTTGCCGACCTGAAATCCACTACTGACCGGCTCCAGTCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTCCGAACGTTTGTGCTGGTGAAAg                                                                                                                                           <  1:134474/189‑1 (MQ=255)                                                                                                                                               cGAAGTCAAATACGACACACTGATTACCGACGTACAAAAGTATCTCGATACCTATTTTGCCGACCTGAAATCCACTCCTGACCGGCTCCAGTCGCTGACCTTAGATACCTGCCAGCAAGCTAAcccc                                                                                                                                                                                                     >  1:415443/1‑127 (MQ=255)                                                                                                                                                         tACGACACACTGATTACCGACGTACAAAAGTATCTCGATACCTATTTTGCCGACCTGAAATCCACTACTGACCGGCTCCAGTCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTCCGAACGTTtg                                                                                                                                                       <  1:143988/163‑1 (MQ=255)                                                                                                                                                                                          ctcGATACCTATTTTGCCGACCTGAAATCCACTACTGACCGGCTCCAGTCGCTGACCtt                                                                                                                                                                                                                              <  1:248580/59‑1 (MQ=255)                                                                                                                                                                                          ctcGANACNTNTTNNGNCGACNTGAAATCCACTACTGACCGGCTCCAGTCGCTGACCtt                                                                                                                                                                                                                              >  2:248580/1‑59 (MQ=255)                                                                                                                                                                                             gATACCTATTTTGCCGACCTGAAATCCACTACTGACCGGCTCCAGTCGCTGACCCTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCCGCGTTTCGCCTGAATGTCCGAACGTTTGTGCTGGTGAAAGATAAAACAACATTCTGTTCATCTGCGCCCGGTGAGATGGACATTCCACTCAATGAATTGATTCCGGCGCTCGACATtaataa                                                         >  1:254368/1‑221 (MQ=255)                                                                                                                                                                                                          ccGACCTGAAATCCACTACTGACCGGCTCCAGTCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTCCGAACGTTTGTTCTTGTGAAAGATAAAAAAACATTCTGTTCATCTGCGACCGGTGAGATGGACATTcn                                                                                             <  1:53605/172‑2 (MQ=255)                                                                                                                                                                                                              ncTGAAATCCACTACTGACCGGCTCCAGTCGCTGACCTTAGCTACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTCCGAACGTTTGTGCTGGTGAAAGATAAAAAAACATTCTGTTCATCTGCGACCGGTGAGATGGACATTCCACTCAATGAATTGATTCCGGCGCTCGACATTAATAAAAACGTCGATATGGCGATCTTACCCGGCACGCCGATAGTGCCGAAc           >  1:101113/2‑250 (MQ=255)                                                                                                                                                                                                               ctgcaaTCCACTACTGACCGGCTCCAGTCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTCCGAACGCTTGTGCTGGTGAAAGATAAAAAAACATTCTGTTCATCTGCGACCGGTGAGATGGACATTCCACTCAATGAATTGATTCCGGCGCTCGACATTAATAAAAACGTCGATATGGCGATCTTACCCGGc                             >  1:35033/5‑231 (MQ=255)                                                                                                                                                                                                                 nnnnnnnnnnantGNNCGGCNCCAGTCGCTGCCCTTAGATACCTGNCAGCAAGCTAACCCCGAACGGACCGCCCGCGNANCGTTTAGCATGAATGTCCGAACGTTTGTGCTGGTGAAAGATAAAAAAANATTCTGTTCANCTGNNACCGNTNANATGGACATTCCACTCAATGAATTGATTCCNGCGCTCGACATTAATAAAAACGTNNATNNNGCNNTCTTa                                   <  2:371154/213‑1 (MQ=255)                                                                                                                                                                                                                       cACTACTGACCGGCTCCAGTCGCTGACCTTAGATACCTGCCAGCAAGCTACTCCCGCCCTGACCGCCCGCGCAGCGTTTAGCATGAATGTCCGCACGTCTGTGCTGGTGAAAGATAAAACACCATTCTGTTCATCTGCGACCGGTGAGATGGACATTCCACTTAATGAATTGATTCCGGCGCTCGCCCTTAATAAAAACGTCGATATGGCGATCTTACCCGGCACGCAGATGGTGCCGAACAAACCCGCa  >  1:431125/1‑250 (MQ=255)                                                                                                                                                                                                                           actGACCGGCTCCAGTCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGAACGACCGCGAAGAGTTTAGCATGAATGTCCGAACGTTTGTGCTGGTGCAAGATAAAAAAACATTCTGTTCATATGCGACCGGTGAGATGGACATTCCACTAAATGAATTGATTCCGGCGCTCGACATTAATAAAAACGTCGATATGGCGATCTTa                                   >  1:371154/1‑213 (MQ=255)                                                                                                                                                                                                                            ctGACCGGCTCCAGTCGCTGACCTTATATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTCCGAACGTTTGTGCTGGTGAAAGATAAAAAAACATTCTGCTCATCTGCGACCGGTGAGATGGACATTCCACTCAATGAATTGATTCCGGCGCTCGACATTAATAAAAACGTCGATATGGCGATCTTACCCgn                              <  1:308543/217‑2 (MQ=255)                                                                                                                                                                                                                            ctGAACGGCTCCAGTCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTCCGAACGTTTGTGCTGGTGAAAGATAAAAAAACATTCTGTTCATCTGCNACCNNNnnggnn                                                                                                     >  2:308543/1‑143 (MQ=255)                                                                                                                                                                                                                               aCCGGCTCCAGTCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGcn                                                                                                                                                                                <  1:90241/68‑2 (MQ=255)                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                       CGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCATTGTTGCAGGCGTAATGATTGCGATACTGGTGAGTTGCCTTCAGTTTTTAGTGGCCTGGCATAAGCACGAAGTCAAATACGACACACTGATTACCGACGTACAAAAGTATCTCGATACCTATTTTGCCGACCTGAAATCCACTACTGACCGGCTCCAGCCGCTGACCTTAGATACCTGCCAGCAAGCTAACCCCGAACTGACCGCCCGCGCAGCGTTTAGCATGAATGTCCGAACGTTTGTGCTGGTGAAAGATAAAAAAACATTCTGTTCATCTGCGACCGGTGAGATGGACATTCCACTCAATGAATTGATTCCGGCGCTCGACATTAATAAAAACGTCGATATGGCGATCTTACCCGGCACGCCGATGGTGCCGAACAAACCCGCA  >  NC_000913/2270700‑2271163

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑