Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP028101	336,797	1 bp→TTT	noncoding (27/1558 nt)	C7Y58_01750 ←	16S ribosomal RNA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP028101	336,797	0	A	T	100.0%	61.7 / NA	31	noncoding (27/1558 nt)	C7Y58_01750	16S ribosomal RNA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (20/11);  total (20/11)
*	CP028101	336,797	1	.	T	96.8%	63.8 / ‑2.8	31	noncoding (27/1558 nt)	C7Y58_01750	16S ribosomal RNA
Reads supporting (aligned to +/- strand):  ref base . (0/1);  new base T (20/10);  total (20/11)
Fisher's exact test for biased strand distribution p-value = 3.55e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
*	CP028101	336,797	2	.	T	96.8%	61.7 / ‑2.8	31	noncoding (27/1558 nt)	C7Y58_01750	16S ribosomal RNA
Reads supporting (aligned to +/- strand):  ref base . (0/1);  new base T (20/10);  total (20/11)
Fisher's exact test for biased strand distribution p-value = 3.55e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.55e-01

TTCAAGTAGACTTGCATGTGTTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TA‑‑ATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAACAGCCAGATTTTCTTATATAATTAACTTATTAT  >  CP028101/336718‑337049                                                                                  |||||                                                                                                                                                                                                                                                           ttCAAGTAGACTTGCATGTGTTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAatttttttattttttt                                                                                     >  1:35362/1‑251 (MQ=9)    aaGTAGACTTGCATGTGTTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTAtttttttt                                                                                    >  2:671070/1‑249 (MQ=9)         gACTTGCATGTGTTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCa                                                                             >  1:112239/1‑251 (MQ=9)         gACTTGCATGTGTTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCa                                                                             >  1:542779/1‑251 (MQ=9)             tGCATGTGTTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCattta                                                                         <  2:633640/251‑1 (MQ=9)               cATGTGTTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTTTCTT‑‑ATAGCTCATCTTTACTATCTTATTTAACACCAAAATTTATGGTTGCTATTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCatttatt                                                                       <  1:591482/251‑1 (MQ=11)               cATGTGTTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTTATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCatttatt                                                                       <  2:552544/251‑1 (MQ=9)               cATGTGTTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCatttatt                                                                       <  2:112239/251‑1 (MQ=9)               cATGTCTTAAGCATTCTGTCAGTGTTTGACCTAAGCTTGAATCAAAATCATCGTTCAATCTTTT‑‑TTTTATAGCTCATCGTTGCTATCTTATTTAACAACAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTCATGTCATTATCACATTAACATCAATTATATTAACATTATTCCTAGTTTTTGTTAACAATATTTTTTTATTTTTTTTCCATTTTTTTATTTTTTTTCTAACCatttaat                                                                       <  2:35362/251‑3 (MQ=11)                  gtgtTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTAttttt                                                                    >  1:190573/1‑251 (MQ=9)                  gtgtTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTAttttt                                                                    >  2:621088/1‑251 (MQ=9)                  gtgtTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTAttttt                                                                    >  2:299691/1‑251 (MQ=9)                  gtgtTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTAttttt                                                                    >  2:115415/1‑251 (MQ=9)                  gtgtTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTAttttt                                                                    >  1:8092/1‑251 (MQ=9)                  gtgtTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATACTAACAGTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTATTTCAATTTTTTTATTTTTTTTCTTACCATTTAttttt                                                                    >  1:518176/1‑251 (MQ=11)                    gtTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTa                                                                   >  2:598703/1‑250 (MQ=12)                    gtTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTGATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTa                                                                   >  1:574520/1‑250 (MQ=12)                    gtTAAGCATTCTGCCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTa                                                                   >  1:60659/1‑250 (MQ=12)                              cTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTAtttt                                                         >  2:369119/1‑250 (MQ=12)                                gTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTcaa                                                      >  1:337195/1‑251 (MQ=9)                                         cATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAAt                                             >  2:363470/1‑251 (MQ=12)                                         cATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAAt                                             >  1:13064/1‑251 (MQ=12)                                                aGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGAcc                                       <  2:8092/250‑1 (MQ=255)                                                aGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGAc                                        >  1:323612/1‑249 (MQ=255)                                                     ggATCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTGTTATTGTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATCTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAACa                                 >  1:529506/1‑251 (MQ=11)                                                       aTCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAAc                                  >  2:504800/1‑248 (MQ=255)                                                       aTCAAACTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTACTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAAc                                  <  1:504800/248‑1 (MQ=255)                                                            aCTCTTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTATCACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAACAGCCAGAt                          <  1:423494/251‑1 (MQ=255)                                                             ctctTCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAACAGCCAGAtt                         <  2:551966/251‑1 (MQ=255)                                                                 tCGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAACAGCCAGATTTTCt                     <  1:290474/251‑1 (MQ=255)                                                                  cGTTCAATCTTTT‑‑TTTTATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAACAGCCAGATTTTCtt                    <  1:115415/251‑1 (MQ=255)                                                                      atctttttt‑‑tt‑‑ATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAACAGCCAGATTTTCTTATATaa              <  1:299691/246‑1 (MQ=255)                                                                          ttttt‑‑tt‑‑ATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAACAGCCAGATTTTCTTATATAATTaa          <  1:296053/250‑1 (MQ=255)                                                                           tttt‑‑tt‑‑ATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAACAGCCAGATTTTCTTATATAATTAAc         <  2:397930/251‑1 (MQ=255)                                                                                      tAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTCTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTAGTCACATTGACATCAATTATATTAACATTATTCGTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAACAGCCAGATTTTCTTATATAATTAACTtattat  <  1:598703/251‑1 (MQ=255)                                                                                  |||||                                                                                                                                                                                                                                                           TTCAAGTAGACTTGCATGTGTTAAGCATTCTGTCAGCGTTCATCCTGAGCCAGGATCAAACTCTTCGTTCAATCTTTT‑‑TA‑‑ATAGCTCATCTTTGCTATCTTATTTAACACCAAATTTTATGGTTGCTTTTTTGTCTTTTCTCTATTCTGTTGCTAATGTCCTTGTCACATTGACATCAATTATATTAACATTATTCCTAGTTTTTGTCAACAATATTTTTTTATTTTTTTTCAATTTTTTTATTTTTTTTCTTACCATTTATTTTTACTTTTATTTTCAACAAAAAAATCTGACCTTAACAGCCAGATTTTCTTATATAATTAACTTATTAT  >  CP028101/336718‑337049

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑