Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,594,047	T→C	pseudogene (4040/5422 nt)	yneO ←	AIDA‑I family autotransporter YneO

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,594,047	0	T	C	100.0%	72.1 / NA	23	pseudogene (4040/5422 nt)	yneO	AIDA‑I family autotransporter YneO
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (11/12);  total (11/12)

TGGGTATCGCCTTTCACGTTCATCTTATCGGTGGGCGAATTATCGCCGCCCAGCGTCGCGTTGAACGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCC  >  NC_000913/1593923‑1594171                                                                                                                             |                                                                                                                             tGGGTATCGCCTTTCACGTTCATCTTATCGGTGGGCGAATTATCGCCGCCCAGCGTCGCGTTGAACGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTAtt                                                                                                               <  2:80729/140‑1 (MQ=255)   ggTATCGCCTTTCACGTTCATCTTATCGGTGGGCGAATTATCGCCGCCCAGCGTCGCGTTGAGCGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCa                                                                                                             >  1:334521/1‑140 (MQ=255)        cGCCTTTCACGTTCATCTTATCGGTGGGCGAATTATCGCCGCCCAGCGTCGCGTTGAACGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGa                                                                                                        >  1:34616/1‑140 (MQ=255)        cGCCTTTCACGTTCATCTTATCGGTGGGCGAATTATCGCCGCCCAGCGTCGCGTTGAACGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGa                                                                                                        >  1:444897/1‑140 (MQ=255)              tCACGTTCATCTTATCGGTGGGCGAATTATCGCCGCCCAGCGTCGCGTTGAACGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCCCTATTCATTTAAACCGTg                                                                                                  >  2:598721/1‑140 (MQ=255)                   ttCATCTTATCGGTGCGCGAATCATCGCCGCCCAGCGCCGCGTTGAACGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTgccgcc                                                                                             <  1:195476/140‑1 (MQ=255)                    tCATCTTATCGGTGGGCGAATTATCGCCGCCCAGCGTCGCGTTGAACGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCa                                                                                            <  2:444897/140‑1 (MQ=255)                                tGGGCGAATTATCGCCGCCCAGCGTCGCGTTGAACGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGCTCCCCCCCTTCGCTGTCAATTTGAATCGTGACGCCATTCACCAGGTTg                                                                                >  2:328295/1‑140 (MQ=255)                                    cGAATTATCGCCGCCCAGCGTCGCGTTGAACGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTgccgc                                                                            <  1:560742/140‑1 (MQ=255)                                         tATCGCCGCCCAGCGTCGCGTTGAACGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATa                                                                       <  1:82557/140‑1 (MQ=255)                                                        tCGCGTTGAACGTCATCAGGCCTTTCTTTTCGGTATAATTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGaca                                                        <  1:220329/140‑1 (MQ=255)                                                           cgTTGAACGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGc                                                     <  2:165361/140‑1 (MQ=255)                                                                 aCGTCATCAGGCCATGGTTTCCAGTTTAGTTGCCGTTTACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGcc                                               <  1:249267/140‑1 (MQ=255)                                                                              aTTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATa                                  <  2:363616/140‑1 (MQ=255)                                                                              aTTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATa                                  >  2:44652/1‑140 (MQ=255)                                                                                     ccGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCa                           >  2:2669/1‑140 (MQ=255)                                                                                      cGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCat                          <  1:391637/140‑1 (MQ=255)                                                                                         tataGTTGCCGTTAACGGTCAGTACATTCCCCGGTCCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCATATc                       <  2:334521/140‑1 (MQ=255)                                                                                            aGTTGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCATATCAcc                    >  1:372982/1‑140 (MQ=255)                                                                                              ttGCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTCTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCATATCACCTg                  >  2:419434/1‑140 (MQ=255)                                                                                                gCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCATATCACCTGCa                >  2:449432/1‑140 (MQ=255)                                                                                                gCCGTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCATATCACCTGCa                >  2:511947/1‑140 (MQ=255)                                                                                                   gTTAACGGTCAGTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCATATCACCTGCAgtg             >  1:506793/1‑140 (MQ=255)                                                                                                              gTACATTCCCCGGTTCCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTcc  <  1:357561/140‑1 (MQ=255)                                                                                                                             |                                                                                                                             TGGGTATCGCCTTTCACGTTCATCTTATCGGTGGGCGAATTATCGCCGCCCAGCGTCGCGTTGAACGTCATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCC  >  NC_000913/1593923‑1594171

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑