Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	ACB143	5,386,500	C→A	intergenic (‑509/+1142)	CJ019_05070 ← / ← nptII	hypothetical protein/neomycin phosphotransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	ACB143	5,386,500	0	C	A	100.0%	66.9 / NA	22	intergenic (‑509/+1142)	CJ019_05070/nptII	hypothetical protein/neomycin phosphotransferase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (13/9);  total (13/9)

TAGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCCGT‑‑CGT‑‑‑CA‑‑GGA‑TC‑‑AT‑‑C‑CGGGCGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTGGGCT  >  ACB143/5386369‑5386607                                                                                                                                    |                                                                                                                         tatcctgcagTCTAAATAAAAAGGCCTCCCAAATCTGGGGGCCTTTTTTATTGATAACAAAAATTGATAGAATTCTTTCATTTAAGAACCTAATATTACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                                   <  1:48563/131‑1 (MQ=255) tAGCCAGCAGTCTAACTAAAAAGGCCTCCCATATCGTGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTTTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                                   <  7:109011/137‑1 (MQ=255) tAGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                                   <  5:114723/137‑1 (MQ=255) tAGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                                   <  1:3128/137‑1 (MQ=255) tAGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                                   <  1:35060/137‑1 (MQ=255) tAGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                                   <  3:39689/137‑1 (MQ=255) tAGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                                   <  3:331172/137‑1 (MQ=255)  aGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                                  <  5:222461/137‑2 (MQ=255)  aGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                                  <  4:321576/137‑2 (MQ=255)  aGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                                  >  6:19610/1‑136 (MQ=255)  aGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                                  >  3:321576/1‑136 (MQ=255)    ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtgta                                                                                                                >  7:50004/1‑134 (MQ=255)    ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCC‑TTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtgtac                                                                                                               >  6:75039/1‑133 (MQ=255)                                          gcctttttATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGcc                                                                   <  5:75039/134‑1 (MQ=255)                                             tttttATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGccccc                                                                <  2:21790/137‑1 (MQ=255)                                                       aaaCAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCAc                                                      <  2:8392/136‑1 (MQ=255)                                                                     cGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCttt                                        >  4:361102/1‑137 (MQ=255)                                                                      gAATACTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTGGGCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCtttt                                       <  7:245488/137‑1 (MQ=255)                                                                           ttttCATTTAACACCCTAATATCACATCTCGCCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGT‑‑‑GAACGGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTAtt                                  <  1:170691/136‑1 (MQ=255)                                                                                aTTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCt                             <  1:325080/137‑1 (MQ=255)                                                                                 tttAATACCGTAATATGACATCTCGGGAGGCTTGTCGACGACGGCGGTCTCAGTGGTGT‑‑‑CA‑‑GGT‑AC‑‑ATACC‑CCGACGCTAGCAAAGCATGAGAAAGCCACCGGAATATCTCGTTCCGGGGGCTTTTTTATTGCGCTg                            <  8:4602/137‑1 (MQ=255)                                                                                            aaTATGACATCTCGGCCGGCTTTGCGACGACGGGGGTCTCAGTGGGGTA‑‑CT‑‑GTACAA‑‑AC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAgg                 <  5:360596/137‑1 (MQ=255)                                                                                             atatGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAggg                >  8:161605/1‑137 (MQ=255)                                                                                              tatGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGc               >  4:296994/1‑137 (MQ=255)                                                                                              tatGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGc               >  6:388511/1‑137 (MQ=255)                                                                                               atGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCg              >  5:155029/1‑137 (MQ=255)                                                                                                      ctcGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTTCGATGCGGGTGCCAGGGCGTGCCCtt       >  6:156043/1‑137 (MQ=255)                                                                                                      ctcGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCtt       >  8:189773/1‑137 (MQ=255)                                                                                                      ctcGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGAACACCTTCCGGGGGCGTTTTTATTTGGCAGCGGGTGCCAGGGCGGGCCCtt       >  1:194952/1‑137 (MQ=255)                                                                                                      ctcGGCCGGCTTGTCGACGACGGCGGTCTAAGT‑‑GGTGTACG‑‑GTA‑CA‑‑AA‑‑CACCTACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCtt       >  6:374407/1‑137 (MQ=255)                                                                                                      ctcGGCCGGCTTGGCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCtt       <  5:355881/137‑1 (MQ=255)                                                                                                         ggccggcTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCCCCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTggg    >  5:148875/1‑137 (MQ=255)                                                                                                         ggccggcTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTggg    >  1:305794/1‑137 (MQ=255)                                                                                                         ggccggcTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTggg    >  1:117363/1‑137 (MQ=255)                                                                                                           ccggcTTGTCGACGACGGCGGTCTCAGT‑‑GGTG‑‑TAC‑GGT‑ACAAAC‑‑C‑CCGACGCTAGCAACGCATGAGAAAGCCCCAGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTGGGCt  >  1:243328/1‑137 (MQ=255)                                                                                                                                    |                                                                                                                         TAGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCCGT‑‑CGT‑‑‑CA‑‑GGA‑TC‑‑AT‑‑C‑CGGGCGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTGGGCT  >  ACB143/5386369‑5386607

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑