Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	ACB143	5,386,513	+AA	intergenic (‑522/+1129)	CJ019_05070 ← / ← nptII	hypothetical protein/neomycin phosphotransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	ACB143	5,386,512	1	.	A	87.5%	39.7 / 1.9	16	intergenic (‑521/+1130)	CJ019_05070/nptII	hypothetical protein/neomycin phosphotransferase
Reads supporting (aligned to +/- strand):  ref base . (1/1);  new base A (6/8);  total (7/9)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.17e-01
*	ACB143	5,386,512	2	.	A	87.5%	38.3 / 1.9	16	intergenic (‑521/+1130)	CJ019_05070/nptII	hypothetical protein/neomycin phosphotransferase
Reads supporting (aligned to +/- strand):  ref base . (1/1);  new base A (6/8);  total (7/9)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.35e-01

TATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCCGT‑‑CGT‑CA‑GGAT‑C‑‑A‑‑TCCGGGCGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTT  >  ACB143/5386417‑5386602                                                                                                      ||                                                                                             tATTTATAAAAAAAATTGATCTAATTCTTTCATTTAATACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGGCTCAGT‑‑GGTGTACGGTA‑C‑‑AACCCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGaa                                                       <  4:72639/137‑1 (MQ=255) tATTGAAAACAAAAATTGCTCGAATTCTTTCATTTAAGACCCTAATCTGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGaa                                                       <  3:118565/137‑1 (MQ=255)        aaCAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCAcc                                                >  2:78492/1‑137 (MQ=255)          aaaaaaTTGATCTAATTCTTTCATTTAAGACCCTAATATGACAGCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGTGGGGT‑AC‑GGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCta                                              <  5:281863/136‑2 (MQ=255)           aaaaaTTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTA‑C‑‑AACCCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCAGCttg                                             >  6:241103/1‑136 (MQ=255)              aaTTGATCGACTTCTTTCATTTAAGACCCAAATATGACATCGCGGCCGGCTTGTCGACGACGGCGGTCTCAGG‑‑GGTGTACGGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCgg                                          <  1:233075/137‑1 (MQ=255)                           gtatCATTTAACACACTAATATGACATCACGGCCGGCTTGTCGACGACGGCGGTCTCCGT‑‑GGTGTA‑CGTTACAAA‑‑CCCCGACGCTAGCTACGCTTGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTAtt                             <  3:214805/134‑1 (MQ=255)                               cATTAAAGCCCCTAATATGACATCTCGGCCGGCTTGTCGCCGACGGCGGTCTCAGT‑‑GGTGTACGGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTgcgc                         <  6:190059/137‑1 (MQ=255)                               aaTTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGTGGTGT‑CC‑GGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTgcgc                         <  8:263231/136‑1 (MQ=255)                                     aGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCggg                   <  2:12479/137‑1 (MQ=255)                                            aaTATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAgg            <  5:34780/137‑1 (MQ=255)                                                      ctcGGCCGGCTTGTCGACGCCGGCGGTCTCAGT‑‑GGTGTACGGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCtt  >  7:254349/1‑137 (MQ=255)                                                      ctcGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCtt  >  5:166838/1‑137 (MQ=255)                                                      ctcGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCtt  >  6:238825/1‑137 (MQ=255)                                                      ctcGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGCAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGTTGCCAGGGCGTGCCCtt  >  4:296192/1‑137 (MQ=255)                                                      atcGGCCGGCTTGTCGACGACTGCGGTCTCAGT‑‑GGTGTACGGTA‑CAAA‑‑CCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCTCTGCGTGTGCCAGGGCGTGCCCtt  >  2:84756/2‑137 (MQ=255)                                                                                                      ||                                                                                             TATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCCGT‑‑CGT‑CA‑GGAT‑C‑‑A‑‑TCCGGGCGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTT  >  ACB143/5386417‑5386602

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑