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%	58.3 / NA	21	intergenic (‑509/+1142)	CJ019_05070/nptII	hypothetical protein/neomycin phosphotransferase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (5/16);  total (5/16)

TAGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCCGT‑‑CGT‑C‑A‑GGATC‑‑ATCCGGGCGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTGGGCTCC  >  ACB143/5386369‑5386609                                                                                                                                    |                                                                                                                     tAGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                               >  2:118112/1‑137 (MQ=255) tAGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                               <  3:203746/137‑1 (MQ=255) tAGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                               <  5:216325/137‑1 (MQ=255) tAGCCAGCAGTCAAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                               <  2:158374/137‑1 (MQ=255) aaGCCAGCAGTCTAACTAAAAAGGCCTCCGACATCGGGCGGCATTTTTTATTGATAACAAAAATTGATCCAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                               <  7:146765/136‑1 (MQ=255) aaGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggt                                                                                                               <  5:105768/136‑1 (MQ=255)  aGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                              >  3:174630/1‑136 (MQ=255)  aGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                              <  3:203184/137‑2 (MQ=255)  aGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtg                                                                                                              <  8:224207/137‑2 (MQ=255)  aGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTGTTTTAGTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCATAATATGACATCTCGGACGGCTTGGCGACGCCGGCGGTCTCtgt‑‑ggtg                                                                                                              >  8:294275/1‑136 (MQ=255)    ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtgta                                                                                                            >  5:168967/1‑134 (MQ=255)    ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtgta                                                                                                            >  8:251821/1‑134 (MQ=255)    ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtgta                                                                                                            >  6:205523/1‑134 (MQ=255)    ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTAGACGACGGCGGTCTCagt‑‑ggtgta                                                                                                            >  7:285094/1‑134 (MQ=255)    ccAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTAAAATTAACACCCAAATATGACATATCGGCAGGCTGGTCGACGACTGCGGTCTCagt‑‑ggtgta                                                                                                            >  6:196706/1‑134 (MQ=37)       gcagTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCagt‑‑ggtgtacgg                                                                                                         <  1:271278/137‑7 (MQ=255)                                                 tATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGaa                                                              <  5:248219/137‑1 (MQ=255)                                                      aTAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCa                                                         >  6:53047/1‑137 (MQ=255)                                                        aaCAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCAcc                                                       >  3:272699/1‑137 (MQ=255)                                                              aaTTGATCTAATTCTTTCATTAAAGACCCAAATATGACATCTCGGCCGGCTTGGCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCgg                                                 <  5:253052/137‑1 (MQ=255)                                                                 tGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCggggg                                              <  1:118112/137‑1 (MQ=255)                                                                     cGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCttt                                          >  5:99973/1‑137 (MQ=255)                                                                      taaTTCTTTCATTTATGACCCTAATATGCCATCTCGGCCGGCTGGTCTACGACGGCGGTCTCAGT‑‑GGG‑CTACGGTACAAACCCCGACGCTAGCAACGCATGAGAAACCCCCCGGAAGATCACCTTCCTGGGGCtttt                                         <  4:247285/136‑1 (MQ=255)                                                                       aaTTCTTTCATTTACCACCATACAATTACACCTCGGCCGGCTTGGCGACGACGGGGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCttttt                                        <  4:215125/137‑1 (MQ=255)                                                                             ttCATTTACGACCCAAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGTGGGGT‑A‑C‑GGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTgc                                  <  8:250365/137‑1 (MQ=255)                                                                              tCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTgcg                                 <  6:99973/137‑1 (MQ=255)                                                                               aaTTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCATT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTgcgc                                <  1:231046/136‑1 (MQ=255)                                                                               aaTTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTgcgc                                <  6:112873/136‑1 (MQ=255)                                                                                            aaTATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAgg                   <  4:141415/137‑1 (MQ=255)                                                                                             atatGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCtt                                                     <  3:319199/102‑1 (MQ=255)                                                                                             atatGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCtt                                                     >  4:319199/1‑102 (MQ=255)                                                                                              tatGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGc                 <  6:157243/137‑1 (MQ=255)                                                                                               atGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCg                >  4:48497/1‑137 (MQ=255)                                                                                                 gACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTg              <  4:184590/137‑1 (MQ=255)                                                                                                  aCATCTCGGCCGGCTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGttc             <  5:53047/137‑3 (MQ=255)                                                                                                           ccggcTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTGGACt    <  5:189182/137‑1 (MQ=255)                                                                                                             ggcTTGTCGACGACGGCGGTCTCAGT‑‑GGTGT‑ACGGTACAAACCCCGACGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTGGGCTcc  <  4:272699/137‑1 (MQ=255)                                                                                                                                    |                                                                                                                     TAGCCAGCAGTCTAACTAAAAAGGCCTCCCAAATCGGGGGGCCTTTTTTATTGATAACAAAAATTGATCGAATTCTTTCATTTAAGACCCTAATATGACATCTCGGCCGGCTTGTCGACGACGGCGGTCTCCGT‑‑CGT‑C‑A‑GGATC‑‑ATCCGGGCGCTAGCAACGCATGAGAAAGCCCCCGGAAGATCACCTTCCGGGGGCTTTTTTATTGCGCTGCGGGTGCCAGGGCGTGCCCTTGGGCTCC  >  ACB143/5386369‑5386609

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: ‑