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	82	28.6	1225488	97.4%	1193625	116.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,484,916	A→G	Q181Q (CAA→CAG)	evgS →	hybrid sensory histidine kinase in two‑component regulatory system with EvgA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,484,916	0	A	G	100.0%	100.5 / NA	27	Q181Q (CAA→CAG)	evgS	hybrid sensory histidine kinase in two‑component regulatory system with EvgA
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (13/14); total (13/14)

CCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAGCAGTATGATTTCCCGCTATTTCACTCA  >  NC_000913/2484786‑2485050

ccaaaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTcc                                                                                                                                <  1:465268/139‑1 (MQ=255)

 caaaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCa                                                                                                                               <  2:510491/139‑1 (MQ=255)

                     ttCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCCAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCttt                                                                                                           >  2:144570/1‑139 (MQ=255)

                      tCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGca                                                                                                                         >  1:595428/1‑124 (MQ=255)

                      tCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGca                                                                                                                         <  2:595428/124‑1 (MQ=255)

                                          ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAGATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCAtt                                                                                      >  1:87934/1‑139 (MQ=255)

                                          ttCACGACTCAATGCGACCACTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTatat                                                                                              <  2:241842/131‑1 (MQ=255)

                                          ttCACGACTCAATGCGACCACTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTatat                                                                                              >  1:241842/1‑131 (MQ=255)

                                                  tCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCg                                                                              >  2:72049/1‑139 (MQ=255)

                                                              cTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGc                                                                  >  1:156387/1‑139 (MQ=255)

                                                                 aCCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGcaca                                                               <  1:144570/139‑1 (MQ=255)

                                                                     cACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGa                                                           <  2:222246/139‑1 (MQ=255)

                                                                                      atTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGgtagta                                          <  1:331095/139‑1 (MQ=255)

                                                                                        tGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAAc                                        >  1:441964/1‑139 (MQ=255)

                                                                                        tGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAAc                                        >  1:192916/1‑139 (MQ=255)

                                                                                         gCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAAca                                       >  1:178934/1‑139 (MQ=255)

                                                                                                tAGCAAATTACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTAc                                <  1:72049/139‑1 (MQ=255)

                                                                                                        tACCCCCCAGACGAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTCTATTGGTAGTAACATCATTACCAGCAGTa                        >  2:99700/1‑139 (MQ=255)

                                                                                                                    gAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGgtagta                                          <  2:415646/109‑1 (MQ=255)

                                                                                                                    gAGGTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGgtagta                                          >  1:415646/1‑109 (MQ=255)

                                                                                                                       gTAATTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAGCAGTATGATTTCCCGCTAtt         >  2:30992/1‑139 (MQ=255)

                                                                                                                          aTTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACcag                             >  2:254420/1‑116 (MQ=255)

                                                                                                                          aTTCATCAGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACcag                             <  1:254420/116‑1 (MQ=255)

                                                                                                                            tcatcaGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAGCAGTATGATTTCCCGCTATTtcact    <  2:184109/139‑1 (MQ=255)

                                                                                                                            tcatcaGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAGCAGTATGATTTCCCGCTATTtcact    <  2:441964/139‑1 (MQ=255)

                                                                                                                            tcatcaGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAGCAGTATGATTTCCCGCTATTtcact    <  1:30992/139‑1 (MQ=255)

                                                                                                                            tcatcaGTCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAGCAGTATGATTTCCCGCTATTtcact    <  2:87934/139‑1 (MQ=255)

                                                                                                                              atcagtcaTTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAGCAGTATGATTTCCCGCTATTtcactca  <  2:178934/139‑1 (MQ=255)

                                                                                                                              atcagtcaTTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAGCAGTATGATTTCCCGCTATTtcactca  <  2:377212/139‑1 (MQ=255)

                                                                                                                              atcagtcaTTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAGCAGTATGATTTCCCGCTATTtcactca  >  1:377212/1‑139 (MQ=255)

                                                                                                                              atcagtcaTTTACAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAGCAGTATGATTTCCCGCTATTtcactca  <  1:99700/139‑1 (MQ=255)

CCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAGCAGTATGATTTCCCGCTATTTCACTCA  >  NC_000913/2484786‑2485050

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