Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	37,396	T→C	A143A (GCA→GCG)	caiC ←	crotonobetaine/carnitine‑CoA ligase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	37,396	0	T	C	100.0%	137.5 / NA	40	A143A (GCA→GCG)	caiC	crotonobetaine/carnitine‑CoA ligase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (17/23);  total (17/23)

TCGGTCGGGAGGTGGTGCCGGAGGTGAAGAGAATTTCCGCCGTATCGTCAGTCGATAGCGGCGGTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGTGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGATAGAATTGCGCACTGGTCACCAGCAGGCACGCCTGGCTATTTTGCA  >  NZ_CP009273/37260‑37511                                                                                                                                         |                                                                                                                    tcggtcggGAGGTGGTGCCGGAGGTGAAGAGAATTTCCGCCGTATCGTCAGTCGATAGCGGCGGTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAgcgc                                                                                                                   >  1:423030/1‑139 (MQ=255)        ggAGGTGGTGCCGGAGGTGAAGAGAATTTCCGCCGTATCGTCAGTCGATAGCGGCGGTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCt                                                                                                            >  1:169442/1‑139 (MQ=255)               gtgCCGGAGGTGAAGAGAATTTCCGCCGTATCGTCAGTCGATAGCGGCGGTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAgg                                                                                                      >  2:307139/1‑138 (MQ=255)                           aaGAGAATTTCCGCCGTATCGTCAGTCGATAGCGGCGGTGCATAGCACAAGGTGGCAGGGTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGc                                                                                          >  2:322112/1‑138 (MQ=255)                                 aTTTCCGCCGTATCGTCAGTCGATAGCGGCGGTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAg                                                                                   <  2:556295/139‑1 (MQ=255)                                      cgccgTATCGTCAGTCGATAGCGGCGGTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCa                                                                              <  1:106678/139‑1 (MQ=255)                                      cgccgTATCGTCAGTCGATAGCGGCGGTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCa                                                                              <  1:534754/139‑1 (MQ=255)                                                          gcggcgGTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTg                                                          <  1:186497/139‑1 (MQ=255)                                                          gcggcgGTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTg                                                          <  2:394954/139‑1 (MQ=255)                                                              cggTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATa                                                       >  2:133211/1‑138 (MQ=255)                                                               ggTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACa                                                     <  2:423030/139‑1 (MQ=255)                                                               ggTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACa                                                     <  1:307139/139‑1 (MQ=255)                                                               ggTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACa                                                     <  1:421902/139‑1 (MQ=255)                                                               ggTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACa                                                     <  1:219459/139‑1 (MQ=255)                                                                gTGCATAGCACAAGGGGGCAGGGTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACa                                                     >  1:117933/1‑138 (MQ=255)                                                                 tGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATa                                                   <  2:482576/139‑1 (MQ=255)                                                                       gCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGa                                                >  2:503848/1‑136 (MQ=255)                                                                       gCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGATa                                              <  1:133211/138‑1 (MQ=255)                                                                         acaAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGATAGaa                                           <  1:446248/139‑1 (MQ=255)                                                                             ggTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATc                                                                                                             >  1:380700/1‑69 (MQ=255)                                                                             ggTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATc                                                                                                             <  2:380700/69‑1 (MQ=255)                                                                             ggTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCTATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGATAGAATTgc                                       >  1:87006/1‑139 (MQ=255)                                                                                 gCAGGTTGTTGATTTTTCAGTTTAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGATAGAATTGCGCa                                    <  2:523956/138‑1 (MQ=255)                                                                                  cAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGATAGAATTGCGCACt                                  >  1:10265/1‑139 (MQ=255)                                                                                  cAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGATAGAATTGCGCACt                                  >  2:64795/1‑139 (MQ=255)                                                                                   aGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACa                                                     >  2:265799/1‑119 (MQ=255)                                                                                   aGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACa                                                     <  1:265799/119‑1 (MQ=255)                                                                                      ttgttgATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGATAGAATTGCGCACTGGTc                              <  1:503848/139‑1 (MQ=255)                                                                                      ttgttgATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGATAGAATTGCGCACTGGTc                              <  1:228216/139‑1 (MQ=255)                                                                                       tgttgATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAAtgtg                                                                                              >  2:130102/1‑74 (MQ=255)                                                                                       tgttgATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAAtgtg                                                                                              <  1:130102/74‑1 (MQ=255)                                                                                        gttgATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGt                                                                                                          <  2:234181/61‑1 (MQ=255)                                                                                        gttgATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGt                                                                                                          >  1:234181/1‑61 (MQ=255)                                                                                         ttgATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACa                                                     >  1:524044/1‑113 (MQ=255)                                                                                         ttgATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACa                                                     <  2:524044/113‑1 (MQ=255)                                                                                                ttCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGATAGAATTGCGCACTGGTCACCAGCAgg                     >  1:303811/1‑138 (MQ=255)                                                                                                                  cTCACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGATAGAATTGCGCACTGGTCACCAGCAGGCACGCCTGGCTATTTTGCa  <  1:64795/139‑1 (MQ=255)                                                                                                                    cACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCaaa                                                                                                  >  1:516165/1‑41 (MQ=255)                                                                                                                    cACGCCATCATCAGCGGGAAGCGCCACATCTGTCAGGCaaa                                                                                                  <  2:516165/41‑1 (MQ=255)                                                                                                                                 gCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAAt                                                                <  2:248223/62‑1 (MQ=255)                                                                                                                                 gCGGGAAGCGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAAt                                                                >  1:248223/1‑62 (MQ=255)                                                                                                                                         |                                                                                                                    TCGGTCGGGAGGTGGTGCCGGAGGTGAAGAGAATTTCCGCCGTATCGTCAGTCGATAGCGGCGGTGCATAGCACAAGGTGGCAGGTTGTTGATTTTTCAGTTGAGTAAACGAACTCACGCCATCATCAGCGGGAAGTGCCACATCTGTCAGGCAAATGTGCCGCAATTGAGTGGCATCTTCCTGCTGAATCTGTTGATACATAGGATAGAATTGCGCACTGGTCACCAGCAGGCACGCCTGGCTATTTTGCA  >  NZ_CP009273/37260‑37511

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑