Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913_3_hsa_tpiA	2,106,741	A→T	100%	S162S (TCT→TCA)	wbbH ←	O‑antigen polymerase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_hsa_tpiA	2,106,741	0	A	T	100.0%	103.6 / NA	34	S162S (TCT→TCA)	wbbH	O‑antigen polymerase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (17/17);  total (17/17)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TCTATTAACACCTACGATGAATGCATAAGAGATGATAACCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTAGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGTTACTTAAC  >  NC_000913_3_hsa_tpiA/2106597‑2106882                                                                                                                                                  |                                                                                                                                               tctATTAACACCTACGATGAATGCATAAGAGATGATAACCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTAACTTTGTATTAGTAAATTTTTTTGAca                                                                                                                                            >  2:439724/1‑148 (MQ=255)   tATTAACACCTACGATGAATGCATAAGAGATGATAACCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCaa                                                                                                                                          >  1:427478/1‑149 (MQ=255)          acCTACGATGAATGCATAAGAGATGATAACCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAaataaata                                                                                                                                   >  1:218433/1‑149 (MQ=255)          acCTACGATGAATGCATAAGAGATGATAACCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAaataaata                                                                                                                                   >  1:265441/1‑149 (MQ=255)            cTACGATGAATGCATAAGAGATGATAACCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAAtaaataaa                                                                                                                                 <  1:305070/149‑1 (MQ=255)            cTACGATGAATGCATAAGAGATGATAACCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAAAAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACAAAAtaaataaa                                                                                                                                 >  1:647708/1‑149 (MQ=255)                   gAATGCATAAGAGATGAT‑GCAATATAATAGAGGTTGCTTACCAGTATTCAGTATAATTTCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAag                                                                                                                          <  1:646946/149‑1 (MQ=255)                      ttcATAAGACATTAAAACCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTAGTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAagtag                                                                                                                       <  2:272665/147‑1 (MQ=255)                        aaTAAGAGAAGAAAACCATA‑AAGACAATTGTCGTACCAGAATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGAAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGtt                                                                                                                     <  2:305257/148‑1 (MQ=255)                                 tgatAACCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGAtt                                                                                                            <  2:391771/149‑1 (MQ=255)                                 tgatAACCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGAtt                                                                                                            >  2:434605/1‑149 (MQ=255)                                 tgatAACCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATAAtt                                                                                                            >  2:388407/1‑149 (MQ=255)                                      aCCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATAGTTTTCTTCGCTTTGTATTAGTAAACTTTTTTGACCACATAAATAAACAAAAAGTAGTTAGAATGAtttcctc                                                                                                       >  2:423685/1‑144 (MQ=255)                                          tA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTACTTAGCATGTTTGGCTG‑CATg                                                                                                  >  2:151973/1‑149 (MQ=255)                                              aGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTAt                                                                                               <  1:573363/149‑1 (MQ=255)                                                   aTTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTga                                                                                          <  2:427478/149‑1 (MQ=255)                                                    tttGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACACAAAAAACAAGTAAAGTAACTGTTTTACTTACCTTTGTATTAATAAATTTCTTTGACAAAATAAATAAAGCAAAACTAGTTAGATTTATTGGCTG‑CCTGTAtattgaa                                                                                         >  2:387394/1‑143 (MQ=255)                                                    tttGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGACTG‑CATTTATGCTtag                                                                                         >  2:535918/1‑149 (MQ=255)                                                           aCCAGGATTCAGTATAAGTGCAAAGATGAATACAATCAAAACAAGTAAAGGAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGACTGGCTG‑CATGTATGCTGAGAAATTTc                                                                                  <  2:225632/149‑1 (MQ=255)                                                             cAGTATTGAGTATAATTGCAAAGATGAATTCAATAAAAACAAGTAAAGTAAATGTTTTACTTAACTTTGTATTAGTAAATTTTTTTGACCAAAAAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTCTGCTGAGAAATTTcgt                                                                                <  2:340845/149‑3 (MQ=255)                                                                tATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTGAGAAATTTCTTGAt                                                                             <  1:34550/149‑1 (MQ=255)                                                                                aaaGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTGAGAAATTTCTTGa                                                                              >  2:244289/1‑132 (MQ=255)                                                                                aaaGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTGAGAAATTTCTTGa                                                                              <  1:244289/132‑1 (MQ=255)                                                                                  aGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCa                                                           >  1:587669/1‑149 (MQ=255)                                                                                  aGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTAACCAAATAAATAAAGCAAAAGTAGTTACCATGACT‑GCTGTGGTGTATACTAAGAAATTTGATGATGTTTATTCAACATCAGCa                                                           >  1:332228/1‑149 (MQ=255)                                                                                         tACAATAAAATCAAGTAAAGTAAATGTTTTACTGACCTTTGCACTAGTAAATATTTTTGACCACCTCTGTGCTGGAAAAGTAGTTATGTTGATTGTCTG‑CATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTa                                                    <  1:685163/149‑1 (MQ=255)                                                                                          aCAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTGAGAAATTTCTTGANGTGNCTTNAAANTCAGCATCTCTTAt                                                   >  1:592387/1‑149 (MQ=255)                                                                                             aTAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCaa                                                >  1:140439/1‑149 (MQ=255)                                                                                                           agtaaaTGTTTTACTTAGCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTGAGAAATTTCTTGATGTGTCTACAACATTAGCATCGCTTATCAAAGTCAGATAGCtaa                                  <  2:340327/149‑1 (MQ=255)                                                                                                                 tGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGc                            <  1:290318/149‑1 (MQ=255)                                                                                                                               ttGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTgg              <  1:205871/149‑1 (MQ=255)                                                                                                                                           aTTTTTTTCACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGTTACTTAAc  <  1:616246/149‑1 (MQ=255)                                                                                                                                            ttttttTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTga                                                                                          <  2:195079/60‑1 (MQ=255)                                                                                                                                            ttttttTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTga                                                                                          >  1:195079/1‑60 (MQ=255)                                                                                                                                                  |                                                                                                                                               TCTATTAACACCTACGATGAATGCATAAGAGATGATAACCATA‑AAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTAGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTG‑CATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGTTACTTAAC  >  NC_000913_3_hsa_tpiA/2106597‑2106882

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑