Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP009273	1,075,312	C→T	S184S (AGC→AGT)	putP →	proline:sodium symporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	1,075,312	0	C	T	97.6%	124.4 / ‑4.1	42	S184S (AGC→AGT)	putP	proline:sodium symporter
Reads supporting (aligned to +/- strand):  ref base C (0/1);  new base T (16/24);  total (16/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.95e-01

TTCTTCACCATTTATTGCGCTTCGGGCATTGTGGCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGCTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCTTTGGTGACTCGCTGGAAGTGATCAAACAAAAGAGCATCGAAAACGTTGATATGCTCAAA  >  CP009273/1075166‑1075453                                                                                                                                                   |                                                                                                                                              ttcttcACCCTTTATGGCGCTTCGGGCAGTGTGGCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTg                                                                                                                                             <  1:150700/149‑1 (MQ=255)               ttGCGCTTCGGGCATTGTGGCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGCTGGACTGACACTGTAc                                                                                                                               <  2:671777/149‑1 (MQ=255)                tGCGCTTCGGGCATTGTGGCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTCTCGACGATTTTCTCGCGGTGAGTTGGACTGACACTGTACa                                                                                                                              <  1:857802/149‑1 (MQ=255)                 gcgcTTCGGGCATTGTGGCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAg                                                                                                                             <  2:489278/149‑1 (MQ=255)                   gcTTCGGGCATTGTGGCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGc                                                                                                                           >  2:2610/1‑149 (MQ=255)                   gcTTCGGGCATTGTGGCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGc                                                                                                                           >  2:100989/1‑149 (MQ=255)                     ttCGGGCATTGTGGCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGccg                                                                                                                         >  2:271281/1‑148 (MQ=255)                         ggCATTGTGGCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGAAACTGTACAGACCAGccc                                                                                                                     >  1:837010/1‑148 (MQ=255)                           cATTGTGGCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACCCCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCtga                                                                                                                   <  2:864800/149‑1 (MQ=255)                                tgGCAGGCGCGCGTCTGTTCGAGAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCGTTACACCTTTATTTGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGAtt                                                                                                              <  1:537565/149‑1 (MQ=255)                                 ggCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGCCGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTCCACGCCAGcacgctcattt                                                                                                             >  1:349172/1‑139 (MQ=255)                                  gCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGAtttt                                                                                                            <  2:865303/149‑1 (MQ=255)                                    aGGCGCGCGTCTGTTTGAAAGCACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTGACACCTTTATTGGCTGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTg                                                                                                          <  1:103729/149‑1 (MQ=255)                                    aGGCGCGCGTCGGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTg                                                                                                          <  1:361178/149‑1 (MQ=255)                                      gcgcgcGTCTGTTTGAAAGTAGCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGcc                                                                                                        <  1:519054/149‑1 (MQ=255)                                        gcgcgTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCt                                                                                                      <  2:486249/149‑1 (MQ=255)                                             tCTGGTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATcc                                                                                                 <  2:518315/149‑1 (MQ=255)                                                            cTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCg                                                                                  <  2:135896/149‑1 (MQ=255)                                                             tttGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGt                                                                                 <  1:880092/149‑1 (MQ=255)                                                                ggCATGCGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCTTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCAt                                                                              <  1:123858/149‑1 (MQ=255)                                                                ggCATGAGCTACGAAACGCCTCTGTGGGCGGGCGCTTCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCAt                                                                              <  1:426653/149‑1 (MQ=255)                                                                  cATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTa                                                                            <  1:815752/149‑1 (MQ=255)                                                                        cTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATTCTTTACACCTTTATTGGCGGTTACCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAgtg                                                                      >  1:546384/1‑149 (MQ=255)                                                                          aCGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGGCTGATGATTTTTGCCCTGATCCTGACGCCGGTTCTCGTCATTATCAGTGTc                                                                    >  2:10109/1‑149 (MQ=255)                                                                           cGAAACGGCTCTGGGGGCGGGCGCTGCTGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCg                                                                   <  1:434788/149‑1 (MQ=255)                                                                               aCGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGGGTCGGTgg                                                               >  2:325840/1‑149 (MQ=255)                                                                                 ggCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCt                                                             >  1:882238/1‑149 (MQ=255)                                                                                    cctGTGGGCGGGCGCTGCGGCGACGCTCCTCTAAACCTATCTCCGCGGTTTCCTCGCGGTGAGTTGGACTGACACCGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCTTTg                                                          <  2:187017/148‑1 (MQ=255)                                                                                             gggcgCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCTTTGGTGACTCGc                                                 >  1:586747/1‑149 (MQ=255)                                                                                               gcgcTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCTTTGGTGACTCGCTg                                               >  2:303852/1‑149 (MQ=255)                                                                                                    tcggcgACGATCGTTGACACCTTTATTGGCGGTTTCCTCGCGGTGACGTGGACTGACACTTTACAGGCCAGCCTGATGATTGTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCTTTGGTGACTCGCTGGAAGt                                          <  1:368543/148‑1 (MQ=255)                                                                                                          acggTCCTTTACTCCTTTATTGGCGGTTTGGTCGCGCTGGGTTGGACTGTCACTGTACAGGCCAGCCTGATGATTTTTGCCGTGGTCCTGTCGCCGGTTATCGTGATTATCAGTGTCGGTGGCTTTGGTGACTCGCTGGAAGTGATcaa                                    <  1:100989/149‑1 (MQ=255)                                                                                                           cgaTCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCTTTGGTGACTCGCTGGAAGTGATcaaa                                   <  1:2610/149‑1 (MQ=255)                                                                                                            gaTCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCTTTGGTGACTCGCTGGAAGTGATaaaag                                  >  1:887528/1‑148 (MQ=255)                                                                                                            gaTCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGTTGGACTGACACTGTAAAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGGCATTATCAGTGTCGGTGGCGTTGGTGCCTCGCTGGGAGGGATcaaac                                  >  1:718495/1‑149 (MQ=255)                                                                                                                  ttcgcccgttcctGGCGGTTCCCTCGCGGGGAGTGGGCCACGCCCTGGACGGTTCAGTCTGGTGATTTTGGCCCTGAGGCTGGCGCCGGTTATCGTCATTATCAGTCTCGGTGGCTTTGGTGACTCGCTGGAAGTGATCAAACAAAaga                            <  1:410080/137‑1 (MQ=255)                                                                                                                                 cgggctCCTCGCTGTGAGTTGGACTGATACGGTACAGGCCAGCCCGCTGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCTTTGGTGACTCGCTGGAAGTGATCAAACAAAAGAGCATCGAAAACGTTg             <  1:529455/144‑1 (MQ=255)                                                                                                                                 cGGTTTCCTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCTTTGGTGACTCGCTGGAAGTGATCAAACAAAAGAGCATCGAAAACGTTg             <  2:531636/149‑1 (MQ=255)                                                                                                                                    tctcccggcggcgAGTTGGGCTGACTGTGTACAGGCCGGCCGGATGCTTTCTCCCCCGATCTTGTCGCAGGTTACCGTCATTATCAGTGTCGGGGGCTTTGGTGACTCGCTGGAAGTGATCTAACAAAAGAGCATCGAAAACGTTGata          <  1:435082/142‑1 (MQ=255)                                                                                                                                        cTCGCGGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCTTTGGTGACTCGCTGGAAGTGATCAAACAAAAGAGCATCGAAAACGTTGATATGCt      >  1:471662/1‑149 (MQ=255)                                                                                                                                         tCGCGGTGAGTTGGCCTGACACTGTACAGGCCAGACTGATGATTTTTGCCCTCATCCTGACGCCGGCGATCGTCATTATCAGTGTCGTTGGCTTTGGTGACTCGCTGGAAGAGATCAAACAAAGGAGCATCGCAAACGTGGATATGCta     >  1:185814/1‑148 (MQ=255)                                                                                                                                            cgGTGAGTTGGACTGACACTGTACAGGCCAGCCTGATGATGTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCTTTGGTGACTCGCTGGAAGTGATCAAACAAAAGAGCATCGAAAACGTTGGTAAGCTCaag  >  1:517662/1‑148 (MQ=255)                                                                                                                                                   |                                                                                                                                              TTCTTCACCATTTATTGCGCTTCGGGCATTGTGGCAGGCGCGCGTCTGTTTGAAAGTACCTTTGGCATGAGCTACGAAACGGCTCTGTGGGCGGGCGCTGCGGCGACGATCCTTTACACCTTTATTGGCGGTTTCCTCGCGGTGAGCTGGACTGACACTGTACAGGCCAGCCTGATGATTTTTGCCCTGATCCTGACGCCGGTTATCGTCATTATCAGTGTCGGTGGCTTTGGTGACTCGCTGGAAGTGATCAAACAAAAGAGCATCGAAAACGTTGATATGCTCAAA  >  CP009273/1075166‑1075453

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: ‑