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
A2 F1 I2 R1	78	65.3	3016648	94.6%	2853749	111.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,351,093	G→A	G190G (GGC→GGT)	dcuS ←	sensory histidine kinase in two‑component regulatory system with DcuR, regulator of anaerobic fumarate respiration

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,351,093	0	G	A	100.0%	195.4 / NA	56	G190G (GGC→GGT)	dcuS	sensory histidine kinase in two‑component regulatory system with DcuR, regulator of anaerobic fumarate respiration
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (29/27); total (29/27)

CGCCTTCTTTGATAGACTGCAACATGGCCTGGCGTTGCTCAAACAGCGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATGCCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGATGGGGGTAAATACGC  >  NC_000913/4350960‑4351223

cgCCTTCTTTGATAGACTGCAACATGGCCTGGCGTTGCTCAAACAGCGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCaaa                                                                                                                               <  1:1348107/139‑1 (MQ=255)

               aCTGCAACATGGCCTGGCGTTGCTCAAACAGCGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGa                                                                                                                      <  2:393896/133‑1 (MQ=255)

               aCTGCAACATGGCCTGGCGTTGCTCAAACAGCGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGa                                                                                                                      >  1:393896/1‑133 (MQ=255)

                           ccTGGCGTTGCTCAAACAGCGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCg                                                                                                    >  1:1295497/1‑139 (MQ=255)

                            cTGGCGTTGCTCAAACAGCGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGa                                                                                                   <  2:624438/139‑1 (MQ=255)

                             tGGCGTTGCTCAAACAGCGTGCAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTATCTAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCATCGAc                                                                                                  <  2:878648/139‑1 (MQ=255)

                              ggCGTTGCTCAAACAGCGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACt                                                                                                 >  2:613871/1‑139 (MQ=255)

                                     cTCAAACAGCGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTg                                                                                          >  2:215840/1‑139 (MQ=255)

                                            aGCGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGtt                                                                                   <  2:1200597/139‑1 (MQ=255)

                                             gCGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTg                                                                                  >  1:1060808/1‑139 (MQ=255)

                                              cGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTgg                                                                                 >  2:518194/1‑139 (MQ=255)

                                              cGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTgg                                                                                 >  2:1395391/1‑139 (MQ=255)

                                               gTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTg                                                                                                <  1:211638/123‑1 (MQ=255)

                                               gTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTg                                                                                                >  2:211638/1‑123 (MQ=255)

                                                   agaTTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTcac                                                                            <  1:858508/139‑1 (MQ=255)

                                                    gaTTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTcaca                                                                           <  1:827162/139‑1 (MQ=255)

                                                                 tCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCaaa                                                                                                                               <  2:838042/74‑1 (MQ=255)

                                                                 tCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCaaa                                                                                                                               >  1:838042/1‑74 (MQ=255)

                                                                 tCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCaa                                                              >  2:1455719/1‑139 (MQ=255)

                                                                  ccAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAg                                                             >  2:870839/1‑139 (MQ=255)

                                                                          aaaaGGATTTTTTTCAGTACCTTAAGCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGa                                                                                                   <  1:1439698/93‑1 (MQ=255)

                                                                          aaaaGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGa                                                                                                   >  2:1439698/1‑93 (MQ=255)

                                                                          aaaaGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGAc                                                                                                  >  1:497981/1‑94 (MQ=255)

                                                                          aaaaGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGAc                                                                                                  <  2:497981/94‑1 (MQ=255)

                                                                                    ttttCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCt                                                                      >  1:1319843/1‑112 (MQ=255)

                                                                                    ttttCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCt                                                                      <  2:1319843/112‑1 (MQ=255)

                                                                                    ttttCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGcc                                           >  2:600408/1‑139 (MQ=255)

                                                                                      ttCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCaa                                         <  1:518194/139‑1 (MQ=255)

                                                                                             ccTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGttt                                  <  1:303960/139‑1 (MQ=255)

                                                                                                tAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCa                                          <  2:6367/128‑1 (MQ=255)

                                                                                                tAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCa                                          >  1:6367/1‑128 (MQ=255)

                                                                                                tAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATg                               >  1:858345/1‑139 (MQ=255)

                                                                                                     aGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGAtttt                          <  1:1455719/139‑1 (MQ=255)

                                                                                                     aGAATGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGAtttt                          <  1:613871/139‑1 (MQ=255)

                                                                                                       aaTGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGAtttt                          <  2:826041/137‑1 (MQ=255)

                                                                                                       aaTGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGAtttt                          >  1:826041/1‑137 (MQ=255)

                                                                                                       aaTGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCa                        <  1:215840/139‑1 (MQ=255)

                                                                                                         tGCAGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGGTTATGATTTTCATc                      >  2:34376/1‑139 (MQ=255)

                                                                                                            aGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGAc                                                                                                  >  2:928546/1‑60 (MQ=255)

                                                                                                            aGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGAc                                                                                                  <  1:928546/60‑1 (MQ=255)

                                                                                                            aGGTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTa                   >  1:235723/1‑139 (MQ=255)

                                                                                                              gTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGa                                                                                                   <  1:450419/57‑1 (MQ=255)

                                                                                                              gTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGa                                                                                                   >  2:450419/1‑57 (MQ=255)

                                                                                                              gTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGa                 >  2:1131511/1‑139 (MQ=255)

                                                                                                              gTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGa                 >  1:39548/1‑139 (MQ=255)

                                                                                                              gTGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGa                 <  2:858345/139‑1 (MQ=255)

                                                                                                               tGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGAt                <  2:1295497/139‑1 (MQ=255)

                                                                                                               tGCCAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGAt                <  1:600408/139‑1 (MQ=255)

                                                                                                                 ccAATCAGTCCGACCAGCATACCAAATAATACCGACCAGTCAATGCTCCCGCGAATGTCATTGATCTGTCGGGTCACCCTGCTACACACAAGACCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGATgg              >  2:1462906/1‑139 (MQ=255)

                                                                                                                 ccAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGATgg              >  1:22708/1‑139 (MQ=255)

                                                                                                                 ccAATCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGATgg              >  1:623684/1‑139 (MQ=255)

                                                                                                                   aaTCAGTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGATgggg            <  1:239072/139‑1 (MQ=255)

                                                                                                                        gTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAAt                                        <  1:264512/106‑1 (MQ=255)

                                                                                                                        gTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAAt                                        >  2:264512/1‑106 (MQ=255)

                                                                                                                        gTCCGACCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGATGGGGGTaaa       <  1:1395391/139‑1 (MQ=255)

                                                                                                                             aCCAGCATACCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGATGGGGGTAAATAcgc  >  1:189103/1‑139 (MQ=255)

CGCCTTCTTTGATAGACTGCAACATGGCCTGGCGTTGCTCAAACAGCGTGGAGATTTCGTAGGGTTCCAGGCCGAAAAGGATTTTTTTCAGTACCTTAACCAGAATGCAGGTGCCAATCAGTCCGACCAGCATGCCAAATAATACCGACCAGATAATGCTCCAGCGACTGTCATTGATCTGTTGGGTCACACGGCTTAACTCAAGGCCGATCGCCACCACGCCAATTTGTTTATGATTTTCATCGTAGATGGGGGTAAATACGC  >  NC_000913/4350960‑4351223

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A