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
A9 F1 I2 R1	78	48.0	2243616	94.8%	2126947	114.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,894,654	G→A	M1M (ATG→ATA) †	chrR →	chromate reductase, Class I, flavoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,894,654	0	G	A	100.0%	116.9 / NA	35	M1M (ATG→ATA) †	chrR	chromate reductase, Class I, flavoprotein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (17/18); total (17/18)

ACACGGCTGGAAAAGCCTGCCGGATATTCACAGCCGCGCCAACAATCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATGTCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGAAAATTGCTCCGGCGAGCATGGAAGTCAATGCGTTACCATCCATTGCCGACA  >  NC_000913/3894522‑3894787

acacGGCTGGAAAAGCCTGCCGGATATTCACAGCCGCGCCAACAATCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGaa                                                                                                                                 >  1:810653/1‑139 (MQ=255)

         gAAAAGCCTGCCGGATATTCACAGCCGCGCCAACAATCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAg                                                                                                                        <  1:708760/139‑1 (MQ=255)

           aaaGCCTGCCGGATATTCACAGCCGCGCCAACAATCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAggt                                                                                                                      <  2:698808/139‑1 (MQ=255)

                cTGCCGGATATTCACAGCCGCGCCAACAATCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGgtta                                                                                                                 <  2:810653/139‑1 (MQ=255)

                cTGCCGGATATTCACAGCCGCGCCAACAATCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGgtta                                                                                                                 <  1:485314/139‑1 (MQ=255)

                cTGCCGGATATTCACAGCCGCGCCAACAATCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGgtta                                                                                                                 <  1:840653/139‑1 (MQ=255)

                 tGCCGGATATTCACAGCCGCGCCAACAATCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGC‑TTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGgttacg                                                                                                               <  2:339386/139‑1 (MQ=255)

                           tCACAGCCGCGCCAACAATCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATTTGAAAAATTGCAGGTGGTTACGTTACTgggg                                                                                                      <  1:205064/139‑1 (MQ=255)

                                    cgcCAACAATCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTgcgc                                                                                             >  2:66462/1‑139 (MQ=255)

                                    cgcCAACAATCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTgcgc                                                                                             >  2:129051/1‑139 (MQ=255)

                                        aacaaTCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAg                                                                                         <  1:129051/139‑1 (MQ=255)

                                          caaTCCTACCAGCCTGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGc                                                                                       <  1:66462/139‑1 (MQ=255)

                                          caaTCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGc                                                                                       <  1:162060/139‑1 (MQ=255)

                                                 aCCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTa                                                                                >  1:133866/1‑139 (MQ=255)

                                                       cGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCa                                                                          <  2:518800/139‑1 (MQ=255)

                                                                cGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCAc                                                                 >  1:110864/1‑139 (MQ=255)

                                                                          aaCTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGcc                                                       >  2:994446/1‑139 (MQ=255)

                                                                               tctACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGaaaa                                                  >  2:1054389/1‑139 (MQ=255)

                                                                                 tACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGAAAAtt                                                >  2:295021/1‑139 (MQ=255)

                                                                                      tGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGAAAATTGCTcc                                           >  1:292669/1‑139 (MQ=255)

                                                                                      tGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGAAAATTGCTcc                                           >  1:919427/1‑139 (MQ=255)

                                                                                      tGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGAAAATTGCTcc                                           >  1:138230/1‑139 (MQ=255)

                                                                                       gAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGAAAATTGCTCCg                                          <  2:743093/139‑1 (MQ=255)

                                                                                        aaGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTc                                                                                     <  2:882977/95‑1 (MQ=255)

                                                                                        aaGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTc                                                                                     >  1:882977/1‑95 (MQ=255)

                                                                                        aaGGCTTTCTCGCCAAATTGATAGACAACCACAGGAGTCATTATATCTGAAAAATTGCAGGTGGTTACGTAAGTGTGGAGCCTGAGCAAAGGCTCATTTAATGGCGTGGTTGCATCTACCCTGCCGAAAATTGCTCCga                                         >  1:130397/1‑138 (MQ=255)

                                                                                         aGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGAAAATTGCTCCGGc                                        <  2:133866/139‑1 (MQ=255)

                                                                                                            aTAGACAACCACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGAAAATTGCTCCGGCGAGCATGGAAGTCAATGCg                     <  1:1054389/139‑1 (MQ=255)

                                                                                                                    ccACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCa                                                                          <  2:169415/78‑1 (MQ=255)

                                                                                                                    ccACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCa                                                                          >  1:169415/1‑78 (MQ=255)

                                                                                                                    ccACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGAAAATTGCTCCGGCGAGCATgg                                <  2:723856/120‑1 (MQ=255)

                                                                                                                    ccACAGGAGTCATCATATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGAAAATTGCTCCGGCGAGCATgg                                >  1:723856/1‑120 (MQ=255)

                                                                                                                               atcatATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGTCTGCGCAAAGGCTCATTTAATGGCATGGt                                                                      <  2:265299/71‑1 (MQ=255)

                                                                                                                               atcatATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGTCTGCGCAAAGGCTCATTTAATGGCATGGt                                                                      >  1:265299/1‑71 (MQ=255)

                                                                                                                               atcatATCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGAAAATTGCTCCGGCGAGCATGGAAGTCAATGCGTTACCATCCATTGCCGACa  >  2:998364/1‑139 (MQ=255)

ACACGGCTGGAAAAGCCTGCCGGATATTCACAGCCGCGCCAACAATCCTACCAGCCGGATGATGCGTTTTGCCCAACTCTCTACCGTGAAGGCTTTTTCGCCAAATTGATAGACAACCACAGGAGTCATCATGTCTGAAAAATTGCAGGTGGTTACGTTACTGGGGAGCCTGCGCAAAGGCTCATTTAATGGCATGGTTGCACGTACCCTGCCGAAAATTGCTCCGGCGAGCATGGAAGTCAATGCGTTACCATCCATTGCCGACA  >  NC_000913/3894522‑3894787

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A