Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP006584	793,936	T→C	S377S (AGT→AGC)	LY180_03720 →	rhsA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006584	793,936	0	T	C	95.7%	53.4 / NA	23	S377S (AGT→AGC)	LY180_03720	rhsA
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base C (10/12);  total (10/13)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01

ATACACAGGTGCGCAGCTTTACTTACGATGATAAATACCGGGGCCGGATGGTGGCGCACCGTCACACGGGCCGACCGGAAATCTGTTACCGTTACGACAGCGACGGGCGGGTGACAGAACAGCTAAACCCGGCAGGCTTAAGTTACACGTATCAGTATGAAAAAGACCGCATCACCATCACCGACAGCCTGAACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACGCCGGATGGCAGGGCATCGGCGTTTTACTATAACCACCACAACCAGTTAACG  >  CP006584/793794‑794230                                                                                                                                               |                                                                                                                                                                                                                                                                                                       aTACACAGGGGCGCAGCTTTACTTACGATGATAAAGACCGGGGCCGGATGGTGGCGCACCGTCACACGGGCCGACCGGAAATCCGTTACCGTTACGACAGCGACGGGCGGGTGACAGAACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGc                                                                                                                                            <  1:186217/299‑1 (MQ=12)   acacAGGTGCGCAGCTTTACTTACGATGATAAATACCGGGGCCGGATGGTGGCGCACCGTCACACGGGCCGACCGGAAATCCGTTACCGTTACGACAGCGACGGGCGGGTGACAGAACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCCACGACAGCCTGGCCCGCCGTGAAGTGCTGCACACGCAGGCCGAAGCCGGGCTGAAGCGGGGGGGGAAAAAGGAAACCGCGGACGGCAGCGTCACACAGAGCCAGGATGACGCCGAGGGCAg                                                                                                                                          >  2:336309/1‑299 (MQ=11)            cgcAGTTTTCCTTACGATGATCAAAACCGGGGCCGGATGGTGGTGCACCTTCACACGGGCCGACCGGAAATCCGTTACCGTTACGACCGCGACGGGCGGGTGAAAGAACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACCCGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGc                                                                                                                                 <  1:376679/299‑1 (MQ=11)                  tttACTTACGATGATAAATACCGGGGCCGGATGGTGGCGCACCGTCACACGGGCCGACCGGAAATCCGTTACCGTTACGACAGCGACGGGCGGGTGACAGAACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGTCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGAc                                                                                                                           <  1:53417/299‑1 (MQ=19)                         acGATGATAAATACCGGGGCCGGATGGTGGCGCACCGTCACACGGGCCGACCGGAAATCCGTTACCGCTACGACAGCGACGGGCGGCTGACAGAACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGCGAAGTGCTGCACACGCAGGGCCAAGCCGGGCTGAAGCGGGTGGCGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGCCCCCGTGGCCAGGCCCAGGGCACACACGCATGca                                                                                                                    >  2:528728/1‑298 (MQ=11)                                   gtggcaggtgcGGATGGGGGCGAACCGTCATCGGCGCCGAGCGGAAATCCTCTAACGTTACGAAAGCAGCGGGAGGGTGACAGAACAGCGAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGGGAAAGACCGCGTCACAGGCGCCGACCGCCTGGACCGCCGTGAAGTGCGTCAGACGCAGGGCGAAGGCGGGATGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGa                                                                                                          <  2:169056/289‑1 (MQ=11)                                     aCCGGGGCCGGATGGTGGCGCACCGGCACCGGGGCCGACCGGAAATCCGTGCCCGTTAAGGCAGCGGTGGGCGGGTGACAGCACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGGATGGGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGaca                                                                                                        <  2:272526/299‑1 (MQ=11)                                                                                     ggtACCGTAACGAGAGCGGAGGGCGGGGGACAGAACAGCTAGACCCGGCAGGCTTGAGCTACGCGTATCAGTATGAGAAAGCCCGAATCACCATAACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGGGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAAcc                                                        <  2:122399/297‑1 (MQ=14)                                                                                      ttACCGTTACGACAGCGACGGGCGGGTGACAGAACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGGGGTGAAAAAGGAACACGCGGACGGCAGCATCCCACAGAGTCGGTTCGACGCCGTGGGCCGGACCAGGGCACAGAACGAGCCCGCAGGCAGGACAACAGAATGAAACCACAATGGGGTGACCGGCCgcatccaccacaacacca                                                       >  2:629597/1‑286 (MQ=11)                                                                                        aCCGTTACGACAGCGACGGGCGGGTGACAGAACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACg                                                     >  1:13796/1‑299 (MQ=255)                                                                                        aCCGTTACGACAGCGACGGGCGGGTGACAGAACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACg                                                     <  1:260330/299‑1 (MQ=255)                                                                                         ccGTTACGACAGCGACGGGCGGGTGACAGAACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACGc                                                    <  1:287610/299‑1 (MQ=255)                                                                                              aCGACAGCGACGGGCGGGTGACAGAACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGGGGTGAAAACGGAACACGCGGACGGCAGCGTCACACCGAGTCCGTTTGACGCCGTGGGCAGGCTCAGGGCACCCACGGATGCCGCACGCCGGACCACAGAGTACAGCACGGATGCGGTGGCCGGCCTCATCACCCGCAAAACCCCGCCAGac                                               >  2:280963/1‑298 (MQ=11)                                                                                                     ggACGGGAGGGGAAAAGAGCAGGTAACGCCGGGCGGCTTGTGTGACAGGTATCCGTAGGGGAAGGACCGCAGCACCAGCGCCTACGGCGTGGACGGGCGGGAAGTGGTGCACACGCAGGGGGAAGCCGGGCTGAAGCGGGGTGGGAAAAAGGAACACGCGGACGGCAGCGGCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCGCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACGCCGGATGGCAggg                                        <  2:353609/298‑1 (MQ=255)                                                                                                        cgggcgggTGACAGAACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACGCCGGATGGCAGGGCAt                                     <  1:7308/299‑1 (MQ=255)                                                                                                                  aCAGAACAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACGCCGGATGGCAGGGCATCGGCGTTTTa                           <  1:366506/299‑1 (MQ=255)                                                                                                                    aGAACAGCTAACCCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACGCCGGATGGCAGGGCATCGGCGTTTTACt                         <  1:309916/299‑1 (MQ=255)                                                                                                                        cAGCTAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGTCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACGCCGGATGGCAGGGCATCGGCGTTTTACTATaa                     >  1:11503/1‑299 (MQ=255)                                                                                                                            tAAACCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACGCCGGATGGCAGGGCATCGGCGTTTTACTATAaccac                 >  1:307444/1‑299 (MQ=255)                                                                                                                             aaaCCCGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACGCCGGATGGCAGGGCATCGGCGTTTTACTATAaccacc                >  1:496066/1‑299 (MQ=255)                                                                                                                                  cGGCAGGCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACGCCGAATGGCAGGGCATCGGCGTTTTACTATAACCACCACAAc           <  1:341396/299‑1 (MQ=255)                                                                                                                                       ggCTTAAGCTACACGTATCAGTATGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACGCCGGATGGCACGGCATCGGCGTTTTACTATAACCCCCACAACCAGtt      >  1:138714/1‑299 (MQ=255)                                                                                                                                           caaGCTACACGTATCAGTCTGAGAAAGACCGCATCACCATCACCGACAGCCTGGACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCCCACAGAGTCAGTCTGACGCCGCGGGCCGCCCCCGCGCACCGACGGATCCCCCCGGCCGGACACCACAGTCCAACCCGCACGTGCTCCCGTGCCTCACCCCGCGCACAACCACGCCCGATGGCGGTGCACCCACGTTTTGCTGTACCCCCcacacacagctaccc  >  2:213604/2‑288 (MQ=9)                                                                                                                                               |                                                                                                                                                                                                                                                                                                       ATACACAGGTGCGCAGCTTTACTTACGATGATAAATACCGGGGCCGGATGGTGGCGCACCGTCACACGGGCCGACCGGAAATCTGTTACCGTTACGACAGCGACGGGCGGGTGACAGAACAGCTAAACCCGGCAGGCTTAAGTTACACGTATCAGTATGAAAAAGACCGCATCACCATCACCGACAGCCTGAACCGCCGTGAAGTGCTGCACACGCAGGGCGAAGCCGGGCTGAAGCGGGTGGTGAAAAAGGAACACGCGGACGGCAGCGTCACACAGAGTCAGTTTGACGCCGTGGGCAGGCTCAGGGCACAGACGGATGCCGCAGGCAGGACAACAGAGTACAGCCCGGATGTGGTGACGGGCCTCATCACGCGCATAACCACGCCGGATGGCAGGGCATCGGCGTTTTACTATAACCACCACAACCAGTTAACG  >  CP006584/793794‑794230

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑