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
A8 F1 I1 R1	771	44.8	2153074	94.1%	2026042	109.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,394,469	G→A	T597I (ACC→ATC)	yhdP ←	DUF3971‑AsmA2 domains protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,394,469	0	G	A	100.0%	180.0 / NA	57	T597I (ACC→ATC)	yhdP	DUF3971‑AsmA2 domains protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (28/29); total (28/29)

TCTCATCAAAGTAAGGGCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGGTTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACTTCAAACTGACCTTCGTTGTG  >  NC_000913/3394335‑3394599

tctcATCAAAGTAAGGGCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGAtttt                                                                                                                                <  2:918526/139‑1 (MQ=255)

tctcATCAAAGTAAGGGCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGAtttt                                                                                                                                <  1:273721/139‑1 (MQ=255)

     tcaAAGTAAGGGCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATcc                                                                                                                           >  1:131842/1‑139 (MQ=255)

          gTAAGGGCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATaaa                                                                                                                      <  1:464858/139‑1 (MQ=255)

           tAAGGGCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAAc                                                                                                                     <  1:307760/139‑1 (MQ=255)

              gggCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCTCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACcgt                                                                                                                  >  2:655281/1‑139 (MQ=255)

              gggCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACcgt                                                                                                                  <  1:655281/139‑1 (MQ=255)

                 ccAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACcgtcgt                                                                                                               <  2:81369/139‑1 (MQ=255)

                    aCGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTtaa                                                                                                            >  1:605341/1‑139 (MQ=255)

                      ggCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTtaata                                                                                                          <  1:481080/139‑1 (MQ=255)

                         tttACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAg                                                                                                       <  2:465165/139‑1 (MQ=255)

                          ttACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGt                                                                                                      >  2:275914/1‑139 (MQ=255)

                           tACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTc                                                                                                     <  1:634652/139‑1 (MQ=255)

                                ggACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGtt                                                                                                <  2:131842/139‑1 (MQ=255)

                                      ttAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAatat                                                                                          <  1:237084/139‑1 (MQ=255)

                                      ttAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAatat                                                                                          <  1:13373/139‑1 (MQ=255)

                                       tAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATc                                                                                         >  1:316764/1‑139 (MQ=255)

                                              aGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCGCTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgtta                                                                                  >  2:1006530/1‑139 (MQ=255)

                                              aGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgtta                                                                                  >  1:275190/1‑139 (MQ=255)

                                              aGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgtta                                                                                  >  1:144525/1‑139 (MQ=255)

                                              aGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgtta                                                                                  >  1:516158/1‑139 (MQ=255)

                                                cGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCGCTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgttagt                                                                                <  1:1006530/139‑1 (MQ=255)

                                                     aTCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATg                                                                           <  1:679960/139‑1 (MQ=255)

                                                     aTCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATg                                                                           >  2:77179/1‑139 (MQ=255)

                                                      tCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGc                                                                          >  1:221172/1‑139 (MQ=255)

                                                                           agtCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGc                                                     <  2:144525/139‑1 (MQ=255)

                                                                             tCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCaa                                                   >  2:732629/1‑139 (MQ=255)

                                                                                      aCTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACcgtcgt                                                                                                               <  2:722573/70‑1 (MQ=255)

                                                                                      aCTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACcgtcgt                                                                                                               >  1:722573/1‑70 (MQ=255)

                                                                                      aCTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGt                                          >  1:126939/1‑139 (MQ=255)

                                                                                      aCTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGt                                          >  2:448643/1‑139 (MQ=255)

                                                                                      aCTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGt                                          >  1:596157/1‑139 (MQ=255)

                                                                                       cTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAAc                                                                                                                     <  1:277401/63‑1 (MQ=255)

                                                                                       cTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAAc                                                                                                                     >  2:277401/1‑63 (MQ=255)

                                                                                        tGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAgg                                                                                     <  2:308681/94‑1 (MQ=255)

                                                                                        tGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAgg                                                                                     >  1:308681/1‑94 (MQ=255)

                                                                                           ggTAAGATTACTCGCGCGCACGCGGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgttagt                                                                                <  2:225173/96‑1 (MQ=255)

                                                                                           ggTAAGATTACTCGCGCGCACGCGGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgttagt                                                                                >  1:225173/1‑96 (MQ=255)

                                                                                           ggTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTgcgc                                     >  2:158598/1‑139 (MQ=255)

                                                                                             tAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAg                                   <  2:221172/139‑1 (MQ=255)

                                                                                               aGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAatat                                                                                          <  1:377573/82‑1 (MQ=255)

                                                                                               aGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAatat                                                                                          >  2:377573/1‑82 (MQ=255)

                                                                                                    aCTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCAcc                            >  2:781221/1‑139 (MQ=255)

                                                                                                      tCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAg                          >  1:436931/1‑139 (MQ=255)

                                                                                                         cgcgcACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAgg                                                                                     >  1:898557/1‑77 (MQ=255)

                                                                                                         cgcgcACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAgg                                                                                     <  2:898557/77‑1 (MQ=255)

                                                                                                         cgcgcACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgttagt                                                                                <  1:827223/82‑1 (MQ=255)

                                                                                                         cgcgcACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgttagt                                                                                >  2:827223/1‑82 (MQ=255)

                                                                                                                    cccAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACTTCAAACTGAc            <  2:126939/139‑1 (MQ=255)

                                                                                                                    cccAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACTTCAAACTGAc            <  1:448643/139‑1 (MQ=255)

                                                                                                                      cAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACTTCAAACTGACCt          <  1:781221/139‑1 (MQ=255)

                                                                                                                          ttAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACTTCAAACTGACCTTCGt      <  1:158598/139‑1 (MQ=255)

                                                                                                                              cGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACTTCAAACTGACCTTCGTtgtg  <  1:791582/139‑1 (MQ=255)

                                                                                                                              cGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGCCAAACTTCGCGTTGCGCAGCGGCACCAGCACTTCAAACTGACCTTCGTtgtg  >  1:303357/1‑139 (MQ=255)

                                                                                                                                   tCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAgg                                                                                     >  1:385088/1‑51 (MQ=255)

                                                                                                                                   tCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACt                      >  1:503276/1‑114 (MQ=255)

                                                                                                                                   tCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACt                      <  2:503276/114‑1 (MQ=255)

TCTCATCAAAGTAAGGGCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGGTTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACTTCAAACTGACCTTCGTTGTG  >  NC_000913/3394335‑3394599

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A