Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP009273	1,211,760	T→C	19.8%	S79S (AGT→AGC)	ymgA →	RcsB connector protein for regulation of biofilm

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	1,211,760	0	T	C	19.8%	30.6 / 2.8	20	S79S (AGT→AGC)	ymgA	RcsB connector protein for regulation of biofilm
Reads supporting (aligned to +/- strand):  ref base T (6/10);  new base C (2/2);  total (8/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.05e-01

TATTAAGCAATTACTCGTAATGAAATCGGCTGAGGAAGATGCTTTCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAAAATTTCATAAGTAAGATGAGAGGTTACCATGCTTGAAGATACTACAATTCATAATGCAATAACTGATAAAGCGTTAGCAAGTTACTTTCGCAGTT  >  CP009273/1211622‑1211891                                                                                                                                           |                                                                                                                                    tattaAGCAATTACTCGTAATGAAATCGGCTGAGGAAGATGCTTTCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATg                                                                                                                           <  2:154387/149‑1 (MQ=255)  attaAGCAATTACTCGTAATGAAATCGGCTGAGGAAGATGCTTTCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATgg                                                                                                                          >  1:279742/1‑149 (MQ=255)     aaGCAATTACTCGTAATGAAATCGGCTGAGGAAGATGCTTTCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCGGACAATAAAAGTATGTTCAATGGTaa                                                                                                                       >  1:187565/1‑149 (MQ=255)               tCGTAATGAAATCGGCTGAGGAAGATGCTTTCCGACGCGATGTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATACAGGAGGGCCAAACCGAAGAACAGCGTCAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAAc                                                                                                             >  1:295180/1‑149 (MQ=255)                       aaaTCGGCTGAGGAAGATGCTTTCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGCATGTTCAATGGTAAGAAAATAAACAGAATACa                                                                                                     >  2:40835/1‑149 (MQ=255)                       aaaTCGGCTGAGGAAGATGCTTTCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGCATGTTCAATGGTAAGAAAATAAACAGAATACa                                                                                                     >  2:40769/1‑149 (MQ=255)                        aaTCGGCTGAGGAAGATGCTTTCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGCATGTTCAATGGTAAGAAAATAAACAGAATACAt                                                                                                    <  1:40835/149‑1 (MQ=255)                        aaTCGGCTGAGGAAGATGCTTTCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGCATGTTCAATGGTAAGAAAATAAACAGAATACAt                                                                                                    <  1:40769/149‑1 (MQ=255)                             gCTGAGGAAGATGCTTTCCGACGCGATTTAATTGACAGCATGATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTaaaa                                                                                               >  1:54360/1‑149 (MQ=255)                                gaggagGATGCTTTCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAAAAttt                                                                                            <  2:107785/149‑1 (MQ=255)                                gAGGAAGATGCTTTCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAAAAttt                                                                                            <  1:8576/149‑1 (MQ=255)                                             tCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAAAATTTCATAAGTAAGATg                                                                               <  1:176911/149‑1 (MQ=255)                                                gACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAAAATTTCATAAGTAAGATgaga                                                                            <  1:112759/149‑1 (MQ=255)                                                 aCGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAAAATTTCATAAGTAAGATGagag                                                                           <  1:112918/149‑1 (MQ=255)                                                                    aTAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAAAATTTCATAAGTAAGATGAGAGGTTACCATGCTTGAAGAta                                                        <  2:265831/149‑1 (MQ=255)                                                                         tCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAAAATTTCATAAGTAAGATGAGAGGTTACCATGCTTGAAGATACTACa                                                   >  1:186922/1‑149 (MQ=255)                                                                                   aGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAAAATTTCATAAGTAAGATGAGAGGTTACCATGCTTGAAGATACTACAATTCATAATg                                         >  2:28030/1‑149 (MQ=255)                                                                                       aTAGTGATTCAGGAGGGCCACACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAATATTACATAAGTGATATGAGAGGTTACCATGCTTGAAGATACTACAATTCATAATGCAAt                                     <  1:205526/149‑1 (MQ=255)                                                                                             aTTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAAAATTTCATAAGTAAGATGAGAGGTTACCATGCTTGAAGATACTACAATTCATAATGCAATAACTGa                               <  2:258867/149‑1 (MQ=255)                                                                                                                          aCAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAAAATTTCATAAGTAAGATGACAGGTTACCATGCTTGAAGATACTACAATTCATAATGCAATAACTGATAAAGCGTTAGCAAGTTACTTTCGCAGtt  <  2:187565/149‑1 (MQ=255)                                                                                                                                           |                                                                                                                                    TATTAAGCAATTACTCGTAATGAAATCGGCTGAGGAAGATGCTTTCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAGTGATTCAGGAGGGCCAAACCGAAGAACAGCGACAGCTGACAATAAAAGTATGTTCAATGGTAAGAAAATAAACAGAATACATTAAAATTTCATAAGTAAGATGAGAGGTTACCATGCTTGAAGATACTACAATTCATAATGCAATAACTGATAAAGCGTTAGCAAGTTACTTTCGCAGTT  >  CP009273/1211622‑1211891

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑