Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	KT2440	4,884,468	T→A	19.0%	intergenic (+45/‑194)	glxR → / → ttuD	2‑hydroxy‑3‑oxopropionate reductase/Putative hydroxypyruvate reductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	KT2440	4,884,468	0	T	A	19.0%	78.4 / 2.6	41	intergenic (+45/‑194)	glxR/ttuD	2‑hydroxy‑3‑oxopropionate reductase/Putative hydroxypyruvate reductase
Reads supporting (aligned to +/- strand):  ref base T (6/25);  new base A (2/5);  total (10/31)
Fisher's exact test for biased strand distribution p-value = 6.24e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCCCTGGGCGGCGGCAACTGGGACCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCAGAGCTGTGCATGTAGGAGCGGGCTTGCCCGCG‑AAGAAGCCAACGCCGTTGAACCTGCGACCACAGGCCCAATGGTGGCATCGAGCAACACCCGCCCCTGGTTCGGCCTGCA  >  KT2440/4884337‑4884602                                                                                                                                    |                                                                                                                                         gCCCTGGGCGTCGGCAACTGGGACCACTCCGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGAACCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTAcc                                                                                                                                       <  3:220207/135‑1 (MQ=255) gCCCTGGGCGGCGGCAACTGGGACCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTAcc                                                                                                                                       <  7:122982/135‑1 (MQ=255)         cggcggcAACTGGGACCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGGGGGGTAAACCGCGCCGACCaa‑accacc                                                                                                                              >  5:259722/1‑130 (MQ=255)          ggcggcAACTGGGACCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCATAGCCGGTAAAACCCCCCCCACCAC‑AGaaccc                                                                                                                             >  1:190785/1‑131 (MQ=255)           gcggcACCTGGGACCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGca                                                                                                                            <  5:185838/135‑1 (MQ=255)           gcggcAACTGGGACCACTCGGCGCTGATCAAAGGCCTGGAGCACATTGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGca                                                                                                                            <  5:240216/135‑1 (MQ=255)           gcggcAACTGGGACCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGca                                                                                                                            <  7:329165/135‑1 (MQ=255)           gcggcAACTGGGACCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGca                                                                                                                            <  1:75292/135‑1 (MQ=255)               cAACTGGGACCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCAACCAA‑AGACCGCCCAAt                                                                                                                        >  4:329327/1‑135 (MQ=255)                  cTGGGACCACTCGGCGATGATCAAAGGCCTGGAGCACATGTCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGc                                                                                                                     <  2:24849/135‑1 (MQ=255)                      gACCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCa                                                                                                                  <  7:94684/134‑1 (MQ=255)                      gACCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCa                                                                                                                  <  8:21205/134‑1 (MQ=255)                       aCCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAACTCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCaga                                                                                                                <  2:86893/135‑1 (MQ=255)                       aCCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCaga                                                                                                                <  2:93148/135‑1 (MQ=255)                       aCCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCaga                                                                                                                <  7:60894/135‑1 (MQ=255)                       aCCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCaga                                                                                                                <  4:281648/135‑1 (MQ=255)                       aCCACTCGGCGCTGAGCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCaga                                                                                                                <  5:23996/135‑1 (MQ=255)                         cACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAACTAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCAGAGc                                                                                                              <  7:289512/135‑1 (MQ=255)                         cACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGACTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCAGAGc                                                                                                              <  6:88210/135‑1 (MQ=255)                               gcgcTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAACCCCGCTCCTACCAA‑AGAcc                                                                                                                               <  3:9232/112‑1 (MQ=255)                               gcgcTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAACCCCGCTCCTACCAA‑AGAcc                                                                                                                               >  4:9232/1‑112 (MQ=255)                                                          gCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCa                                                                                                                  <  7:38634/98‑1 (MQ=255)                                                          gCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCa                                                                                                                  >  8:38634/1‑98 (MQ=255)                                                                  ctcGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCAGAGCTGTGCATGTAg                                                                                                   <  8:194230/105‑1 (MQ=255)                                                                  ctcGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCAGAGCTGTGCATGTAg                                                                                                   >  7:194230/1‑105 (MQ=255)                                                                    cGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCGCCTACCAA‑AGACCGCCCAATCGCTCAGAGCTGTGCATGTAGGAGCGGGCTTGCCCGCG‑AAGAAGCCAACGCCg                                                                  >  6:156653/1‑135 (MQ=255)                                                                    cGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTAACGGGTAAACCCGCAACAACCAA‑AAACCCCACAATCCCTCACAGCTGTGCAAGTAGGAGCAGGCATGACCCCG‑AAGAAGCCAAccccc                                                                  >  8:330124/1‑134 (MQ=255)                                                                           cgacgaCAATTAAAGCGTGTTATGCCGCACTGGCCTGTTCGCGTGTAAACCGGCTCCTACCAA‑CGACCGCACAAGCGCTCAGAGCGGGGAATGTAGGAGCGGGCTGGCCCGCG‑AAGAAGCCAACGCCGTTGAAcc                                                           <  6:134639/135‑1 (MQ=255)                                                                             acgacAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCa                                                                                                                  >  4:43262/1‑79 (MQ=255)                                                                             acgacAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCa                                                                                                                  <  3:43262/79‑1 (MQ=255)                                                                                 aaaataattCTTTTTTCGCCTCAGGGGCGTCTTGGGGGGTAACCCGGCTCATCCCAA‑CGCCCCAAAATTCGCTCAGCGGTGTGATTGTCGGGGGGGTTTTGCCGGGG‑AAGAAGCCAACGCCGTTGAACCTGCGAc                                                     <  2:190785/134‑1 (MQ=255)                                                                                 aaaataatgCTTTTTTAGCCTCACTGGCCGCTTCGCGGGAAACCCCGCCCCTACCAA‑ACCCCGCACAAGCGCGCCGAGGTGTGCATGTAGGAGGGGGGTTGCCCGCG‑AAGAAGCCAACGCCGTTGAACCTGCGAc                                                     <  6:87146/134‑1 (MQ=255)                                                                                       aatCGTTTTTCGCCTCACTGGCCTCTTCGCGGGAAAACCCGCTCCACCCAA‑AGACCGCACAATCCCTCCGAGCTGTGAATGTAGGAGCGGGCTTGCCCGCG‑AAGAAGCCAACGCCGTTGAACCTGCGACCACAgg                                               <  3:30280/135‑1 (MQ=255)                                                                                                  gCCCCACTGGCCTCTTCGCGGGTAACCCCGCCCCTACCAA‑CGCCCCAACAATCGCTCCGCGCGGGGCTTG‑CTGAGGGGGGTTGGCCGGGTAAGAAGCCAACGCCGTTGAACCTGCGACCACAGGCCCAAtggtg                                     <  1:187204/134‑1 (MQ=255)                                                                                                        cgggCCTCTCCGGGGGAAAACCGGATCAAACCAA‑ACCCCCCACAATCGCGCAGCGCGGTCATTTTTGGAGCGGGGTGGCCCGCG‑AAGAAGCCAACGCCGTTGAACCTGCGACCACAGGCCCAATGGTGGCATc                                <  4:280543/131‑1 (MQ=255)                                                                                                             ctctTGGCGGGTAACCCCGCTCCAACCAA‑CGACCGCACAAGCGCGCCGCGCTGTGCTGGTAGGCGGGGGCTTGCCCGCG‑AAGAAGCCAACGCCGTTGAACCTGCGACCACAGGCCCAATGGTGGCATCGAGCAac                         <  6:259722/135‑1 (MQ=255)                                                                                                             ctctTCGCGGGAAACCCCGCGCC‑ACCAACACCCCGCACATGGGCTCAGCGCTGGGCATGTCGGAGGGGGATGGCCCGCG‑AAGAAGCCAACGCCGTTGAACCTGCGACCACAGGCCCAATGGTGGCATCGAGCAac                         <  3:329327/135‑1 (MQ=255)                                                                                                                       gaaaccccGCTCCTACCAA‑ACCCCGCACACGCCCTCAGCGCTGTGAAGGTAGGCGCGGGCTTGCCCGCG‑AAGAAGCCAACGCCGTTGAACCTGCGACCACAGGCCCAATGGTGGCATCGAGCAACACCCGCCCCt               <  3:57623/130‑1 (MQ=255)                                                                                                                            cccGCTCCAACCAA‑CCACCGCACAACCGCCCCGCGCTGTGAATGTCGGCGCGGGCTGGCCCGCG‑AAGAAGCCAACGCCGTTGAACCTGCGACCACAGGCCCAATGGTGGCATCGAGCAACACCCGCCCCTGGTTc          <  7:12891/135‑1 (MQ=255)                                                                                                                            cccGCTCAAACCAA‑TCCCCCCACAAGCCCACTGAGGTGTGATTTTAGTAGCGGGCTTGCCGGCG‑AAGAAGCCAACGCCGTTGAACCTGCGACCACAGGCCCAATGGTGGCATCGAGCAACACCCGCCCCTGGTTc          <  7:26059/135‑1 (MQ=255)                                                                                                                                  ccTACCAA‑AGACCGCACAATCGCTCAGAGCTGTGCATGTAGGAGCGGGCTTGCCCGCG‑AAGAAGCCAACGCCGTTGAACCTGCGACCACAGGCCCAATGGTGGCATCGAGCAACACCCGCCCCTGGTTCGGCCTg    >  2:1436/1‑135 (MQ=255)                                                                                                                                    tACCAA‑AGACCGCACAATCGCTCAGAGCTGTGCATGTAGGAGCGGGCTTGCCCGCG‑AAGAAGCCAACGCCGTTGAACCTGCGACCACAGGCCCAATGGTGGCATCGAGCAACACCCGCCCCTGGTTCGGCCTGCa  >  1:106374/1‑135 (MQ=255)                                                                                                                                    |                                                                                                                                         GCCCTGGGCGGCGGCAACTGGGACCACTCGGCGCTGATCAAAGGCCTGGAGCACATGGCCAACTTCTCGATCCGCGACGACAAATAAATCGTTTTTAGCCTCACTGGCCTCTTCGCGGGTAAACCCGCTCCTACCAA‑AGACCGCACAATCGCTCAGAGCTGTGCATGTAGGAGCGGGCTTGCCCGCG‑AAGAAGCCAACGCCGTTGAACCTGCGACCACAGGCCCAATGGTGGCATCGAGCAACACCCGCCCCTGGTTCGGCCTGCA  >  KT2440/4884337‑4884602

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: ‑