Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,141,971	A→G	S14S (TCT→TCC)	unknown ←	ATPase provides energy for both assembly of type IV secretion complex and secretion of T‑DNA complex (VirB4)

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	1,141,971	0	A	G	100.0%	97.8 / NA	37	S14S (TCT→TCC)	unknown	ATPase provides energy for both assembly of type IV secretion complex and secretion of T‑DNA complex (VirB4)
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (14/23);  total (14/23)

TGCGTTATCCTTACTGGTTGACAGAATTTTTAAGTTTTCACGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCGGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCTACTTTGCGTGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTCCTCAACTACCGCGCGAGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTATTTGGTTGTTTCTC  >  1/1141731‑1142031                                                                                                                                                                                                                                                 |                                                             tGCGTTATCCTTACTGGTTGACAGAATTTTTAAGTTTTCACGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGc                                                    <  1:791288/251‑1 (MQ=255)         ccTTACTGGTTGACAGAATTTTTAAGTTTTCACGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCaa                                             >  1:456069/1‑250 (MQ=255)           ttACTGGTTGACAGAATTTTTAAGTTTTCACGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAacac                                          <  1:854387/251‑1 (MQ=255)           ttACTGGTTGACAGAATTTTTAAGTTTTCACGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAacac                                          <  1:851997/251‑1 (MQ=255)           ttACTGGTTGACAGAATTTTTAAGTTTTCACGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAacac                                          <  1:149394/251‑1 (MQ=255)           ttACTGGTTGACAGAATTTTTAAGTTTTCACGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAacac                                          <  1:750601/251‑1 (MQ=255)           ttACTGGTTGACAGAATTTTTAAGTTTTCACGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAacac                                          <  1:739408/251‑1 (MQ=255)           ttACTGGTTGACAGAATTTTTAAGTTTTCACGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAaca                                           >  1:599479/1‑250 (MQ=255)                   tGACAGAATTTTTAAGTTTTCACGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCAC‑TAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCAt                                 <  1:195667/251‑1 (MQ=255)                         aaTTTTTAAGTTTTCACGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATAc                               <  1:534334/248‑1 (MQ=255)                                        aCGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaa             <  1:61885/251‑3 (MQ=255)                                           cccTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAacac                                          <  1:178129/219‑1 (MQ=255)                                           cccTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATAc                               <  1:584936/230‑1 (MQ=255)                                           cccTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaacaa          >  1:145040/1‑246 (MQ=255)                                           cccTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaacaa          <  1:753838/251‑6 (MQ=255)                                           cccTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaacaa          <  1:743301/251‑6 (MQ=255)                                           cccTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaacaa          >  1:526553/1‑246 (MQ=255)                                           cccTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaacaa          <  1:551424/251‑6 (MQ=255)                                           cccTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaacaa          <  1:586823/251‑6 (MQ=255)                                           cccTAAACCGCTTAAATCTAACTTAGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaacaa          >  1:617088/1‑246 (MQ=255)                                                                   aGCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATAc                               <  1:110964/206‑1 (MQ=255)                                                                    gCTAAGGCTGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaacaattccatct  <  1:291606/234‑14 (MQ=255)                                                                             gTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaacaa          >  1:119024/1‑212 (MQ=255)                                                                                      ccTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTc                       <  1:210560/195‑1 (MQ=255)                                                                                      ccTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaacaa          >  1:419967/1‑203 (MQ=255)                                                                                       cTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaacaa          >  1:757303/1‑202 (MQ=255)                                                                                                        gTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCg                   <  1:634774/181‑1 (MQ=255)                                                                                                             ggAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATAc                               <  1:627749/164‑1 (MQ=255)                                                                                                                    ggTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAacac                                          <  1:56101/146‑1 (MQ=255)                                                                                                                     gTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAacac                                          >  1:729603/1‑145 (MQ=255)                                                                                                                                                gTTTTTCGCTGATTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATAc                               <  1:516453/129‑1 (MQ=255)                                                                                                                                                           aTTCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTggg                                                     >  1:184333/1‑96 (MQ=255)                                                                                                                                                            ttCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATAc                               <  1:351878/117‑1 (MQ=255)                                                                                                                                                            ttCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACtt                             >  1:323269/1‑119 (MQ=255)                                                                                                                                                            ttCCGAAACCATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaac            >  1:187834/1‑133 (MQ=255)                                                                                                                                                                    ccATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTAtaacaa          >  1:431875/1‑125 (MQ=255)                                                                                                                                                                     cATCCACATAATCCACTTTGCGGGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTGCTCAACTACCGCGCGGGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTc                       >  1:32390/1‑116 (MQ=255)                                                                                                                                                                                                                                                 |                                                             TGCGTTATCCTTACTGGTTGACAGAATTTTTAAGTTTTCACGCCCTAAACCGCTTAAATCTAACTTAGCTAAGGCGGTTTCGAGCCCTTTACGCACTAAGAAAGTACGGGAATCCGGTTGTAATTCACGGATAATTTCAAATTGTTTTTCGCTGATTCCGAAACCATCCACATAATCTACTTTGCGTGCAATCGGGTTAGGTAAACAAATGGTTGTTTCACATTCCTCAACTACCGCGCGAGAAATTGGGCTTTTCAACACTTCATCCATACTTTGGGTCATCGGTATTTGGTTGTTTCTC  >  1/1141731‑1142031

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑