Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	ACB143	5,386,500	C→A	100%	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%	64.3 / NA	23	intergenic (‑509/+1142)	CJ019_05070/nptII	hypothetical protein/neomycin phosphotransferase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (8/15);  total (8/15)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCCGT‑‑CGT‑CA‑GGATC‑‑ATCCGGGCGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTGG  >  ACB143/5386371‑5386604                                                                                                                                  |                                                                                                               gCCAGCAGTCTAACTATAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                         <  4:203482/135‑1 (MQ=255) gCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                        <  8:38057/136‑2 (MQ=255) gCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                        <  2:173470/136‑2 (MQ=255) gCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                        <  5:278562/136‑2 (MQ=255) gCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                        <  2:264219/136‑2 (MQ=255) gCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                         <  1:251466/135‑1 (MQ=255) gCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                         <  5:102650/135‑1 (MQ=255) gCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                         <  4:279443/135‑1 (MQ=255) gCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                         <  5:138951/135‑1 (MQ=255)  ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtgt                                                                                                       >  2:241969/1‑134 (MQ=255)  ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                        >  5:210764/1‑134 (MQ=255)  ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                        >  4:102351/1‑134 (MQ=255)  ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                        >  4:112646/1‑134 (MQ=255)  ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                        >  8:126174/1‑134 (MQ=255)  ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                        >  4:200393/1‑134 (MQ=255)  ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGAACGATTTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGACGACGACGGCGGTCTCagt‑‑ggtg                                                                                                        >  8:246719/1‑134 (MQ=39)      cagTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtgtacgg                                                                                                   <  6:102661/136‑7 (MQ=255)      cagTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtgtacgg                                                                                                   <  8:244260/136‑7 (MQ=255)       agTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtgtacgg                                                                                                   >  3:271365/1‑129 (MQ=255)                                             tttATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGccccc                                                             <  7:86355/135‑1 (MQ=255)                                                    aTAACAAATATTGATCGACTTGTTTCATTTAAGCCCATAATATGTCATCTCGGCCGCCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGAt                                                      <  7:265972/135‑1 (MQ=255)                                                      aaCAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCAc                                                   >  4:53616/1‑136 (MQ=255)                                                         aaaaaTTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCtt                                                >  6:132342/1‑136 (MQ=255)                                                             aTTGATCGAATTCTTTCATTTAAGACCCTAATATGCCATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGG‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCgg                                            <  6:113882/136‑1 (MQ=255)                                                                            tCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTAtt                               <  6:77952/134‑1 (MQ=255)                                                                              aTTTCAGACCCTAATATCACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTgcgc                           <  2:204322/136‑1 (MQ=255)                                                                              aTTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTgcgc                           <  3:65698/136‑1 (MQ=255)                                                                              aTTTAAGACCAAAATATCACATCTCGGCCGGCTTGTCGACGACGGCGGGCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTgcgc                           <  3:138308/136‑1 (MQ=255)                                                                                 tAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTg                         <  1:56774/135‑1 (MQ=255)                                                                                  aaGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCg                       >  6:274834/1‑136 (MQ=255)                                                                                    gACCCTATTATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGTGGGGT‑AC‑GGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCggg                     <  7:188187/136‑1 (MQ=255)                                                                                     aCCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGt                    <  1:34559/136‑1 (MQ=255)                                                                                           atatGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAgg              <  6:208046/136‑1 (MQ=255)                                                                                           atatGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCAACTTCCGGGGGCTTTATTATTGCGCTGCGGGTGCAAgg              >  2:57723/1‑136 (MQ=255)                                                                                           atatGACATCTCGGCCGGCTTGGCGACGCCGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCACGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAgg              <  6:55363/136‑1 (MQ=255)                                                                                           atatGACATCTCGGCCGGCTTGGCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAgg              <  7:185869/136‑1 (MQ=255)                                                                                             atGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGc            >  2:226982/1‑136 (MQ=255)                                                                                              tGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGc            <  1:199562/135‑1 (MQ=255)                                                                                                   tctcGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGccc      >  8:96811/1‑136 (MQ=255)                                                                                                    ctcGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑TGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCACCCGGAAGATCACCGTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCTTTCCCt     >  2:118239/1‑136 (MQ=255)                                                                                                       ggccggcTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGccc      <  3:112646/132‑1 (MQ=255)                                                                                                       ggccggcTTGTCGACGACGGCGGTCTCAGT‑‑GGTGTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTgg  >  4:191849/1‑136 (MQ=255)                                                                                                                                  |                                                                                                               GCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCCGT‑‑CGT‑CA‑GGATC‑‑ATCCGGGCGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTGG  >  ACB143/5386371‑5386604

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: ‑