Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,634,699	0	A	C	65.5%	5.1 / 13.9	29	S63A (TCA→GCA)	tfaQ	putative tail fiber assembly protein TfaQ
Reads supporting (aligned to +/- strand):  ref base A (6/4);  new base C (11/8);  total (17/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.52e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CAATATGCTCACTGGCTACCTGCATCAGGTTGTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACAGTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTATGAGGCGGAATATATGCATCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGGTTGTTCACTCATTCTGAATGC  >  NC_000913/1634453‑1634882                                                                                                                                                                                                                                                       |                                                                                                                                                                                        naaTATGCTCACTGGCTACCTGCATCAGGCTTTTTTTTGTTTCTTCCGCCTCCCGGATCAGGAACAGTTTTTCTGCTTCCGTATCATTCACCCAGGCTGTGCCGTTCCACTTCTGCTATTCCCCTCCCGACGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCAACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCtc                                                                                                                                                                                      >  1:40980/2‑250 (MQ=11)                  aCCTGCATCAGGCTTTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACAGTTGTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGATATTCCCCTCCCGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGc                                                                                                                                                                    <  1:6768/251‑1 (MQ=11)                                             tcCGCCTCCCGGATCCGGAACAGTATTTCTGCTGCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTggn                                                                                                                                           <  1:114396/249‑2 (MQ=14)                                               cGCCTCCCGGATCCGGAACAGTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGGGCCGGTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGGCCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTg                                                                                                                                       <  1:28640/251‑1 (MQ=14)                                                nccTCCCGGATCCGGAACAGTTTTTCTGCTTCCGTATCTTTCCCCCCGGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGCAGCCACGTCATAAACCGTTTTACCCCGATGCTCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGc                                                                                                                                      >  1:82539/2‑251 (MQ=9)                                                    cccGGATCCGGAACAGTTTTTATGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAagccagc                                                                                                                                                        >  1:102100/1‑229 (MQ=14)                                                           ccGGAACAGTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGATATTCCCCTCCCGGCGATAACCCGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTAc                                                                                                                           >  1:258774/1‑251 (MQ=11)                                                                   gTTTTTCTGCTTCCGTATCCTTCACCNAGGCTGNNCCNTTCCACTTCTGATATTCCCNTCNNNGNNNTNCCCAGNTANNATTTTCCGGNAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACNGTTTTACCCNNATGGTCTTCAACGAGATGCCCNGATNNCNNANCACNGtn                                                                                                                                                                             >  2:95190/1‑192 (MQ=11)                                                                                        nacncctngnngnnCCGNTCCACTTCTGAAACTCCCCTCNNGTCGAGAACNAGGTACCATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGNAAGCCACGTNNTANACCGGNTNNNCNNNATNATCTTCAACGAGATGCCACNATNNCTCATCNCTGTTGAAAACAGCCACGAagccagc                                                                                                                                                        <  2:102100/185‑1 (MQ=11)                                                                                             cAGGCTGTGCCGTTCCACTTCTGATATTCCCCTCCCGGCGATAACCAGGTAACATTTTCCGGTCACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGAcc                                                                                                           >  1:284034/1‑233 (MQ=11)                                                                                                    tgCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGCGAACATTTTCTGGTCACGAACCGAGTTCAGAAATACATAAAGCGTCGCCGGAAGCCACGTCATCAACCGTTTTAACCCGATGATCTTCAACGAGATGCCACGCTGACTCATCACTGTTGAAAAAAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTAATGTTTGCTGGCAGCCCTGTa                                                                                                       >  1:201672/1‑230 (MQ=11)                                                                                                        gTTCCACTTCTGATATTCCCCTCCCGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACAAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCtt                                                                              >  1:308967/1‑251 (MQ=11)                                                                                                                 ctgatattCCCCTCCCGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTGTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCAGCACTGTTGAAAACAGCCACAAAGCCAGTCGGAATATCTGGCGGTGCAATAGCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCan                                                                                 <  1:276879/232‑2 (MQ=11)                                                                                                                   gatattCCCCTCCCGGCGATAACCAGGGAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCTGAAGCCACGTCATAGACGTTTTTCCCCCGATGGGCTGCAACGAGATGCCACGATGCCTCAGCACTGTTGAACACAGcc                                                                                                                                                                   <  1:338736/150‑1 (MQ=2)                                                                                                                    atattCCCCTCCCGGCGATAACCAGGTAAAATGTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCAAAGACGGTTTTACCCCGATTGTCGTCAGCGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATg                                                                                                     <  1:237137/212‑1 (MQ=11)                                                                                                                     aaCTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCCGACATAACTAACGCGTCGCCGGCAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCCCGATGACTCATCACTGTTGAACACAGCCACGCAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTa                                                                                                       >  1:227302/1‑213 (MQ=11)                                                                                                                                 ngCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGaaa                                                                                                                                                                         >  1:131113/2‑135 (MQ=18)                                                                                                                                 ggCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGCATATATGCGTCCCCTTCACCAATAAATTCATTAGTTCCGGc                                                     >  1:171716/1‑251 (MQ=11)                                                                                                                                                       ccGGTAACGGACCGAGTTCAGAAAGAAATAACGCGTCGCCGGAAGCCACGTCATATACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATg                               <  1:404807/251‑1 (MQ=11)                                                                                                                                                        nggTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGcc                                                                                                                                                                   >  1:87173/2‑118 (MQ=11)                                                                                                                                                          gTAACGGACCGAGTTCAGAAATAAATACCGCGGCGCCGGAAGCCACGCCATAAACCGTTTTCCCCCGATGATCTTCAACGAGATGCCACAATGACTCATCACTGTTGAAAACAGCCACGAagccagccn                                                                                                                                                      <  1:79453/129‑2 (MQ=11)                                                                                                                                                                gACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACACAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGgt                      >  1:222565/1‑251 (MQ=11)                                                                                                                                                                gACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGgt                      >  1:176322/1‑251 (MQ=11)                                                                                                                                                                  ccGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGgttg                    <  1:95190/251‑1 (MQ=11)                                                                                                                                                                      gTTCAGAAATAAATAACGCGTCGCCGNAAGCCANNTCNTAGACGGTTTTACCCCGATNGTNNNCNNNGNGATGCNACNNTGCCTCATCNCTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTNCTGTTTGccnnc                                                                                                                >  2:105074/1‑151 (MQ=11)                                                                                                                                                                      gTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGc                                                                                                                <  1:105074/155‑1 (MQ=11)                                                                                                                                                                       ttCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCANTATNNNNNCtnn                                                                                                                        >  2:270414/1‑144 (MQ=11)                                                                                                                                                                         naGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGACAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCTTCACAAATAAATTCATTAGTTCCGGCCAGCAGATTATaa                                        >  1:41931/2‑224 (MQ=11)                                                                                                                                                                             aataaatcACGCGTCGCCGGAAGCCACGTCATAAAACGTTTTACCCCGATGATCTTCACCGAGATGCCACGATGAATCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCg                                                                                                                               >  1:372417/1‑133 (MQ=11)                                                                                                                                                                                    aaCGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTATGAGGCGGAATATATGCATCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGGTTGTTCACTCATTCTGAATGc  <  1:324205/251‑1 (MQ=31)                                                                                                                                                                                           cGCCGGAANCNNNGNNATAGACGGTTTTACCCCGATGGTCTTCTACGAGATGCCACGATGNCTCATCACTGTTGAANACNGCCANAAANCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGc                                                                                                                    >  2:310301/1‑130 (MQ=11)                                                                                                                                                                                           cGCCGGAAGCCACGTCATAGACGGTTTGACCCCGATGGTCTTCTACGAGATGCCACGATGCCTCATCACTGGTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGc                                                                                                                    <  1:310301/130‑1 (MQ=11)                                                                                                                                                                                                                                                       |                                                                                                                                                                                        CAATATGCTCACTGGCTACCTGCATCAGGTTGTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACAGTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTATGAGGCGGAATATATGCATCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGGTTGTTCACTCATTCTGAATGC  >  NC_000913/1634453‑1634882

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑