Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,196,305	C→T	R395C (CGT→TGT)	icd →	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,196,305	0	C	T	94.7%	93.0 / NA	40	R395C (CGT→TGT)	icd	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
Reads supporting (aligned to +/- strand):  ref base C (1/0);  major base T (18/18);  minor base A (2/0);  total (21/19)
Fisher's exact test for biased strand distribution p-value = 4.88e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGGCTGCTAACGGTT  >  NC_000913/1196167‑1196444                                                                                                                                           |                                                                                                                                            taCAAAGTTAATTCTGGCTCTATTATTCTATCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCt                                                                                                                                         <  1:713311/142‑1 (MQ=255)    aaaGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACAGCAACCTATGACTAAGAGAGTCtaaa                                                                                                                                      >  2:400899/1‑140 (MQ=37)       gTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTgatgga                                                                                                                                   <  1:269760/143‑1 (MQ=255)                ggttctATTATGCGCTCGGCGGAGATGATGCGGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTaa                                                                                                                          <  1:576475/140‑1 (MQ=21)                 tctctATTATTCTATCCGCTGTTATGATGCTGCGCCACATGGGGAGGACCGAAGCGGCTGACTTAATTATTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTaaa                                                                                                                         <  1:378084/142‑1 (MQ=21)                      gttagcctctgCGCTGAGATGAGGCTGCGCCAGATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAActgct                                                                                                                    <  1:116718/137‑1 (MQ=21)                             tctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGACATGt                                                                                                             >  1:252591/1‑143 (MQ=255)                             tctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGt                                                                                                             >  1:462049/1‑143 (MQ=255)                             tctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTCAGAGAGTCTGATGGATGGCACTAAACTGCCGAAAAGt                                                                                                             >  2:281788/1‑143 (MQ=21)                              ctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCACTCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCACAACTCCTGAAATgat                                                                                                            >  1:181568/1‑141 (MQ=21)                               tcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCACTCAACGTGAAAGTCGTAAGCTCTGTCCCCGACTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTc                                                                                                           >  1:265562/1‑143 (MQ=21)                               tcCGCTGAGATGAGGCTGCGCCACATGGGGTGGACCGACGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTc                                                                                                           <  1:434496/143‑1 (MQ=255)                                  gCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCaga                                                                                                        >  1:31706/1‑143 (MQ=255)                                       gagggtgctggACCACAAGGGTTGGTACGAAGCGGCTGAATTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTg                                                                                                   <  2:336487/138‑1 (MQ=18)                                        acgacgctgcGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCGGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTgg                                                                                                  <  2:644050/138‑1 (MQ=255)                                                gcgcCACTTTGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGa                                                                                          >  2:682260/1‑143 (MQ=255)                                                     acaTGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGAAATCAACGCGAAAACCGTAACCTATGACTACGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTAAGAGGTTGGTGACGAGaacatg                                                                                     >  2:228948/1‑142 (MQ=18)                                                                 ccGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTaa                                                                         >  1:430634/1‑143 (MQ=255)                                                                               ttAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGtt                                                           >  1:682325/1‑143 (MQ=255)                                                                                  aTTGTTGAAGGTATGGAGGGCGCAATCAACGTGAAAACCGTAACCTATGACTTCGAGTGTCAGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTaaa                                                        <  2:54384/143‑1 (MQ=18)                                                                                     gTTATAGGTATGGAGGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGGTGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAAttt                                                     <  1:546807/143‑1 (MQ=255)                                                                                       tAAAGGTGTGGAAGGCGCAATCAAATCGAAAACCGTAATCTATGACTTCGAGTGTCTGATGGATGGCGCAAAACGGCGGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATttat                                                   <  1:352338/143‑1 (MQ=18)                                                                                          atgTATGGAAGGCGGAATCAACGCGAAAAGCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACGGCTGAAATGTTCAGAGTGTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTaa                                                <  1:288412/141‑1 (MQ=21)                                                                                           ggTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAAc                                               >  1:580207/1‑143 (MQ=255)                                                                                             tATGGAGGGCGCAATCAACGCGAAATCCGTCACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTTCTGAAGTGTTCAGAGTTTGGTGACGCGATCATCGATATCATGTAATGCCGTTGTTTGTTAAATTTATTAACgg                                             <  2:575490/143‑1 (MQ=255)                                                                                               tGGGAGGCGCAATCAACGCAAAAACCGTATCCTATGACTGCGAGTGTCTGATGGATGGCGCTCAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGa                                           <  2:345657/143‑1 (MQ=21)                                                                                                 gAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGCAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAACTTTATTAACGGGAGc                                         >  2:523467/1‑143 (MQ=255)                                                                                                         aaTCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGAGCATCGATAACATGTAGTGCCGTAGTTTGTTAAATTTATTAATGAGAGCGTAAAGCt                                 >  1:235737/1‑143 (MQ=25)                                                                                                           tCAACGCGAAAACCGTAACCTATTACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTTACGCTcc                               <  2:47365/143‑1 (MQ=255)                                                                                                           tCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTATCGGGAGCGGAACGCTcc                               >  1:262567/1‑143 (MQ=255)                                                                                                           tCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTTACGCTcc                               <  2:399467/143‑1 (MQ=255)                                                                                                            cAAGGCGAAGACCGTAGCCTAAGACTGCGAGGGGCTGATGGGTGGCGCGAAACTGCTGAAATGTTCAGAGTTGGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTccc                              <  1:682260/143‑1 (MQ=25)                                                                                                              aCGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGGTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAAGGCCCCCgt                            >  1:535900/1‑143 (MQ=255)                                                                                                                     aaCCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGatttt                     >  1:671576/1‑143 (MQ=255)                                                                                                                      aCCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCCTTGtttttt                    <  2:682325/143‑1 (MQ=255)                                                                                                                          tAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTa                <  1:621468/143‑1 (MQ=255)                                                                                                                             ccTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGgc             >  1:445236/1‑143 (MQ=255)                                                                                                                               tATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGAACGGCGAAAACATGTGCTGGCGTAGGCGGTTAGCTTTATTAACCGACGCGTAACGCGCCCGTTGTTTTTTGttgcgccg           >  1:162926/1‑137 (MQ=18)                                                                                                                                     ttCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTACTGCCGTAGTTTGTTAAATTTATTAACGAGAGCGTAACGCTCCCGTTGTTTTTTGTTAGGCAGCTAACg     >  1:446740/1‑143 (MQ=255)                                                                                                                                        gAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGGCTGCTACCGGtt  >  2:716787/1‑143 (MQ=255)                                                                                                                                           |                                                                                                                                            GACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGGCTGCTAACGGTT  >  NC_000913/1196167‑1196444

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑