Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	KT2440	4,077,164	T→G	39.5%	L173R (CTG→CGG)	artJ_2 →	ABC transporter arginine‑binding protein 1

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	KT2440	4,077,164	0	T	G	39.5%	10.1 / 7.4	46	L173R (CTG→CGG)	artJ_2	ABC transporter arginine‑binding protein 1
Reads supporting (aligned to +/- strand):  ref base T (21/3);  new base G (11/5);  total (38/8)
Fisher's exact test for biased strand distribution p-value = 2.29e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.28e-01

GCTACACCGTCGGTGCGCAGTCTTCCTCTACCCAGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑ACGGCGTGATTGCCGACAAATTCCCGCTGCACGAGTGGATGAACAAGAACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGATGCCGCCATCGCTGTGCGCAAGGACG  >  KT2440/4077032‑4077292                                                                                                                                      |                                                                                                                                   gCTACACCGTCGGTGCGCAGTCTTCCTCTACCCAGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCggg                                                                                                                                  >  7:234066/1‑135 (MQ=255)             gTGCGCAGTCTTCCTCTACCCAGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCGGG‑ACGGCGGGTTTg                                                                                                                     >  2:264255/1‑135 (MQ=255)             gTGCGCACTCATCCTCTCCCCAGGACATCTACGCAGAACCGGTGTACGGAAAGGCCGGTGCCGACGTGAGACTGAACCCGACCATCGACGAAGCCAAGGCAGACCATGCGGCCGGAC‑CCCTCG‑CCGGCGTGCTTg                                                                                                                     >  4:221202/1‑135 (MQ=255)              tGCGCAGTCTTCCTCTACCCAGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑CCGGCGTGATTGc                                                                                                                    >  5:68702/1‑135 (MQ=255)              tGCGCAGTCTTCCTCTACCCAGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCCGCC‑GCCCGG‑CCGGCGGGCTTGc                                                                                                                    >  5:146340/1‑135 (MQ=255)                     tCTTCCTCTACCCAGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑ACGGCGTGATTGGCCACaaa                                                                                                             >  3:179683/1‑135 (MQ=255)                      cTTCCACTCCCCCGCCCATCACCCCCGAAGCGGTGAAGGCCATGGCGGGGGCCGACGTCAAACTGACCCCGACCATGGACGAAGCCACCGCAGACCGGGCGGCCGGCC‑GCCTGG‑ACGGCGTGATTGCCGACAAAt                                                                                                            <  4:87514/135‑1 (MQ=255)                        tCCTCTACCCAGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑ACGGCGGGATTGCCGCCAAATTc                                                                                                          >  4:191973/1‑135 (MQ=255)                           tctACCCAGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑ACGGCGTGATTGCCGACCAATTCCCg                                                                                                       >  7:332649/1‑135 (MQ=255)                             tACCCAGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGCCGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCGGG‑CCGGCGTGATTGCCGACAAATTCCCGCt                                                                                                     >  4:227565/1‑135 (MQ=255)                             tACCCAGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑ACGGCGTGTTTGCCGACAAATTCCCGCt                                                                                                     >  1:48632/1‑135 (MQ=255)                                 cAGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCGGG‑CCGGCGTGATTGCCGCCCAAATACCGCTGCAc                                                                                                 >  1:322997/1‑135 (MQ=255)                                  aGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑ACGGCGTGATTGCCGACAAATTCCCGCTGCa                                                                                                  >  3:159518/1‑133 (MQ=255)                                  aGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑CCCTGG‑CCGGCGGGATTGCCGACAAATTCCCGCTGCa                                                                                                  >  8:50361/1‑133 (MQ=255)                                  aGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCCGCC‑GCCCGG‑CCGGCGGGAGTGCCGACAAATTACCGCGGCa                                                                                                  >  8:26177/1‑133 (MQ=255)                                       aTCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCGGG‑CCGGCGGGCGTGCCGCCAAATTGCCGCGGCCCGAGt                                                                                             >  5:173718/1‑133 (MQ=255)                                       aTCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCCGG‑CCGGCGGGCTTGCCGACAAAATCCCGCTGGACGAGTgg                                                                                           >  3:340792/1‑135 (MQ=255)                                       aTCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACATGGCGGCCGGCC‑CCCTGG‑ACGGAGTTATTTCCGACAAAATACACCTGCACCAGTgg                                                                                           >  4:221410/1‑135 (MQ=255)                                            cGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑CCGGCGGGATTGCCGACAAATTCCCGCGGCACGAGGGGATGa                                                                                       >  6:68572/1‑134 (MQ=255)                                            cGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑ACGGCGTGATTGCCGACAAATTCCCGCTGCCCGAGTGGATGaa                                                                                      >  6:170456/1‑135 (MQ=255)                                            cGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑ACGGCGTGATTGCCGACAAAATACCCCTGCACGAGTGGATGa                                                                                       >  7:29421/1‑134 (MQ=255)                                            cGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCGGG‑ACCGCGTGATTTCCGACAAAATACCCCCGCACGAATGGATGa                                                                                       >  5:338188/1‑134 (MQ=255)                                            cGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑CCCGGG‑CCGGCGGGATTGCCGACAAATTACCGCGGCACGAGGGGGTGa                                                                                       >  7:64087/1‑134 (MQ=255)                                                          aCGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑CCGGCGTGATTGCCGCCAAATTCCCGCTGCACGAGTGGATGCACAAGAACGGC‑gggg                                                                       >  3:110421/1‑135 (MQ=255)                                                            ggCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑ACGGCGTGCTTGCCGGCAAATTCACGCAGCCCGCGGTGTTGAACAAGAAAGgg‑gggggt                                                                     >  5:198508/1‑133 (MQ=255)                                                            ggCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCAGG‑ACGGCCTGATTGCCGACAAAATCCCGCTGCCAGAGGGGATGAACAAGCACGGC‑gggggt                                                                     >  3:30971/1‑133 (MQ=255)                                                            ggCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCAGG‑ACCGCCAGATTGCCGACAAAATAACCCAGCACCGATGGATGAACAAGAAcggcccggaa                                                                      >  5:187159/1‑129 (MQ=255)                                                              cAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑GCGGCGTGATTGCCGCCAAATTCCCGCTGCACGAGTGGCTGAACAAGAACGGC‑GGGGATtg                                                                   >  4:140595/1‑135 (MQ=255)                                                                 ggCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGGC‑GCCGGG‑GCGGCGGGGTTGGCGCCCAAATCCCGCGGCCCGAGGGGGTGGACAAGCACGGC‑ggggggtgcg                                                                 >  1:219611/1‑128 (MQ=255)                                                                 ggCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑CCCGGG‑CCGGGGGGGTTGGCGCCAAAATGCCCCGGGCCGCGTGGCTGAACAAGAACCGC‑GGGGGTtgggg                                                                >  5:159033/1‑132 (MQ=255)                                                                   ccGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑GCGGCGTGTTTGGCGCCAAATTGCCGCTGCACGCGTGGTTGCACAAGCACGGG‑GGGGTGtgctg                                                                >  1:321/1‑133 (MQ=255)                                                                         ccGACGTGAAACTGTACCCGACCATGGACGCAGCCAACGCAGACCTGGCGGCCGGCC‑GCCGGG‑ACGGCGTGATTGCCGACAAATTCCCGCTGCGCGCGTGGATGAACAAGCACGGC‑GGGGCTTGCGGGCAGATcc                                                        >  7:137217/1‑135 (MQ=255)                                                                                    cTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑ACGGCGGGATTGCCGCCAAATTCCCGCTGCACGAGTGGATGCACAAGAACGGC‑GGGGCTTGCTGCAAGATCCTTTGCGACGTg                                             >  6:104113/1‑135 (MQ=255)                                                                                    cTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCGGG‑CCGGCGTGATTGCCGCCAAATTCCCGCGGCACGCGTGGGTGAACAAGAACGGC‑GGGGATTGCGGCAAGATCCGTGGCGACCTg                                             >  7:66772/1‑135 (MQ=255)                                                                                            gACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑ACGGCGTGATTGCCGACAAATTCCCGCTGCACGAGTGGATGAACAAGAACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGacac                                     >  4:368791/1‑135 (MQ=255)                                                                                                           cAACGCAGACCTGGCGGCCGGCC‑CCCGGG‑GCCGCGGGTTTTGCGCCAAAATACCGCGGCCCGAGGGGTTGAAAAAGAACCGCGGGGGGTTGGGGC‑ATATCCTTTGCGCCGTGGGGGGCCCCAACGCCCCTgcccc                      >  6:232592/1‑133 (MQ=255)                                                                                                           cAACGCAGACCTGGCGGCCGGCC‑CCCAGG‑ACCGGGTGATTTGCGACAAATTCACGCTGCACGAGGGGGTGGACAACAACGGC‑GGGGATTGCTGCAATATACATGGCGACGTGGCGGACACCCAGGCCGCTggcgc                      >  2:280612/1‑135 (MQ=255)                                                                                                                      tGGCGGCCGGCC‑GCCTGG‑ACGGCGTGATTGCCGACAAATTACCGCTGCACGAGTGGATGAACAAGAACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGCTGCCGCCATCGCtgtgt           >  4:192837/1‑134 (MQ=255)                                                                                                                        ggggcgggcc‑GCCTGG‑ACGGCGTGATTGCCGACAAATTCCCGCTGCACGAGTGGAGGAACAAGAACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGATGCCGCCATCGCTGTgcgc         <  5:163719/133‑1 (MQ=255)                                                                                                                        gcgccgggcc‑gCGGGG‑AGGGCGGGATTCCCGACAAATTCCCGCTGCACGAGTGCATGAACAACAACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGATGCCGCCATCGCTGTgcgc         <  7:94123/129‑1 (MQ=255)                                                                                                                        cgggccggcg‑GCCGGG‑ACGGCGTGATTGCCGACAAATTCCCGCTGCACGCGTGGATGAACAAGAACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGATGCCGCCATCGCTGTgcgc         <  3:76267/133‑1 (MQ=255)                                                                                                                         cggccggccggcGGGG‑ACGGCGTGATTGCCGACAAATTCCCGCGCCAGGAGTGGATGAACAAGAACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGATGCCGCCATCGCTGTgcgc         <  1:119213/135‑1 (MQ=255)                                                                                                                          ggcctccc‑gccgGG‑ACGGCGTGATTGCCGACAAATTCCCGCTGCAGGAGTGGATTACCAAGAACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGATGCCGCCATCGCTGTGCGCaa       <  7:10786/129‑1 (MQ=255)                                                                                                                          ggccggccggccGGG‑ACGGCGTGATGGCCGACAAATTCCCGCTGCACGAGGGGATGAACAAGCACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGATGCCGCCATCGCTGTGCGCa        <  7:347181/135‑1 (MQ=255)                                                                                                                           gccggcc‑gCCTGG‑ACGGCGTGATTGCCGACAAATTCCCGCTGCACGAGTGGATGAACAAGAACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGATGCCGCCATCGCTGTGCGCAAg      >  4:285275/1‑135 (MQ=255)                                                                                                                           gccggcc‑gCCTGG‑ACGGCGTGATTGCCGACAAATTCCCGCTGCACGAGTGGATGAACAAGAACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGATGCCGCCATCGCTGTGCGCAAg      >  8:219748/1‑135 (MQ=255)                                                                                                                           gccgccc‑gCCGGGCAGGGCGTGATTGCCCACAAATGCCCGCTCCCCGTGTGTATCAACACCAACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGATGCCGCCATCGCTGTGCGCaa       <  5:232592/135‑1 (MQ=255)                                                                                                                               gcc‑gcgTGG‑ACGGCGTGATTGCCGACAAATTCCCGCTGCACGCGGGGATTAACAAGCACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGATGCCGCCATCGCTGTGCGCAAGgacg  <  7:26177/135‑1 (MQ=255)                                                                                                                                      |                                                                                                                                   GCTACACCGTCGGTGCGCAGTCTTCCTCTACCCAGGCCATCTACGCCGAAGACGTGTACGGCAAGGCCGGTGCCGACGTGAAACTGTACCCGACCATGGACGAAGCCAACGCAGACCTGGCGGCCGGCC‑GCCTGG‑ACGGCGTGATTGCCGACAAATTCCCGCTGCACGAGTGGATGAACAAGAACGGC‑GGGGATTGCTGCAAGATCCTTGGCGACGTGGCGGACACCAAGGCCGATGCCGCCATCGCTGTGCGCAAGGACG  >  KT2440/4077032‑4077292

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: ‑