Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A5 F95 I1 R1	21	58.4	2051072	94.9%	1946467	140.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_hsa_tpiA	2,106,741	A→T	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%	147.4 / NA	43	S162S (TCT→TCA)	wbbH	O‑antigen polymerase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (18/25); total (18/25)

ACACCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTAGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGTTACTTAAC  >  NC_000913_3_hsa_tpiA/2106604‑2106882

acacCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGCATACAATAAAAACAAGTAAAGTAAATGTTTTATTTTCAATTGTATTAGTAAATTCTTGTAAGCaaataaat                                                                                                                                    >  2:461090/1‑150 (MQ=255)

acacCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCaaataaat                                                                                                                                    >  1:99573/1‑150 (MQ=255)

   ccTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAAtaaataaa                                                                                                                                 <  1:31222/150‑1 (MQ=255)

       cGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCaa                                                                                                                             <  2:103733/150‑1 (MQ=255)

         aTGAATGCGTAAGAGATGATAAGCATATAGACAATTTGCGTACCAGTAGGCAGTAGAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCaaaa                                                                                                                           <  2:547206/150‑1 (MQ=255)

          tGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGACGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAag                                                                                                                          >  1:548194/1‑150 (MQ=255)

            aaTGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAagta                                                                                                                        <  1:58549/150‑1 (MQ=255)

            aaTGCATAAGAGATGAAACCCATAAAGACAATTTGCTTACCAGTATGCAGTATAACTGCAAAGATGAATACAATACAAACAAGTAAAGTCACTGTTTTTTTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAagta                                                                                                                        <  1:461090/150‑1 (MQ=255)

                aaTAAGAAATGATAACCAGAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTa                                                                                                                    <  2:40835/149‑1 (MQ=255)

                      agaTGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGa                                                                                                              >  2:753805/1‑150 (MQ=255)

                        atgatAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGAtt                                                                                                            <  2:956128/150‑1 (MQ=255)

                        atgatAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGAtt                                                                                                            <  1:675860/150‑1 (MQ=255)

                           atAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGc                                                                                                         <  1:404450/150‑1 (MQ=255)

                                      gACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGc                                                                                             <  1:465582/150‑1 (MQ=255)

                                      aaCAATTTGCATACAAGTATTCAAGATAATTGCAAAGATGAATAAAATAAAAGCAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATGTGTTTTCCCAAATACATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGc                                                                                             <  2:377009/149‑1 (MQ=255)

                                       aCAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCaaataaat                                                                                                                                    <  1:67193/111‑1 (MQ=255)

                                       aCAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCaaataaat                                                                                                                                    >  2:67193/1‑111 (MQ=255)

                                                ttACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAAttt                                                                                   >  1:922179/1‑150 (MQ=255)

                                                  aCCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCt                                                                                 <  2:467333/150‑1 (MQ=255)

                                                  aCCAGTATTCAGTATAATTGCAAAGACGAATACAATAAAAACAAATACACCTCATCGTTGACTTACCTCTGTAGTATTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCt                                                                                 <  1:961786/150‑1 (MQ=255)

                                                   ccAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCtt                                                                                <  2:138503/150‑1 (MQ=255)

                                                        aTTCAGTAGAAGTGCAAAGAGGAATACAATAAAAACAAGGAAAGGAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGAtgt                                                                           <  1:586048/150‑1 (MQ=255)

                                                              tataATTGCAAATATTAATACAATAAAAACAAGTAAATTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTc                                                                     <  1:956714/150‑1 (MQ=255)

                                                                   ttGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTACATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACAt                                                                >  2:128107/1‑150 (MQ=255)

                                                                           aTGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCAtct                                                        >  2:872062/1‑150 (MQ=255)

                                                                              aaTACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCtt                                                     >  1:728526/1‑150 (MQ=255)

                                                                                  cAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCa                                                 >  1:534584/1‑150 (MQ=255)

                                                                                         aaCAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCat                                          >  1:227270/1‑150 (MQ=255)

                                                                                               taaagtaaaTGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCt                                    >  2:836137/1‑150 (MQ=255)

                                                                                                 aagtaaaTGTTTTACCTACCTTTGAATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCtaa                                  <  2:760097/150‑1 (MQ=255)

                                                                                                     aaaTGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCtaagtaa                              <  1:463515/150‑1 (MQ=255)

                                                                                                                ttacCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATGTCTTATTAAATTCATCTTGTTAAGTGTGCTAATCCCGa                   >  2:393656/1‑150 (MQ=255)

                                                                                                                 tacCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGaa                  <  1:50618/150‑1 (MQ=255)

                                                                                                                    cTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCtaagtaag                             >  2:576542/1‑136 (MQ=255)

                                                                                                                    cTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCtaagtaag                             <  1:576542/136‑1 (MQ=255)

                                                                                                                    cTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCtaag                                 >  2:337932/1‑132 (MQ=255)

                                                                                                                    cTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCtaag                                 <  1:337932/132‑1 (MQ=255)

                                                                                                                    cTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTg               >  2:297920/1‑150 (MQ=255)

                                                                                                                          aTTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGtt         >  2:511963/1‑150 (MQ=255)

                                                                                                                               tAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCCTGCATTGCT‑ATAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGTTACTTa    <  1:753805/150‑1 (MQ=255)

                                                                                                                               tAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCa                                                              >  2:692868/1‑92 (MQ=255)

                                                                                                                               tAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCa                                                              <  1:692868/92‑1 (MQ=255)

                                                                                                                                 aaTTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGTTACTTAAc  <  1:511963/150‑1 (MQ=255)

ACACCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTAGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTA‑TGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGTTACTTAAC  >  NC_000913_3_hsa_tpiA/2106604‑2106882

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A