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
A3 F50 I2 R1	193	39.9	1341687	91.8%	1231668	149.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,940,308	A→G	L102P (CTG→CCG)	hsrA ←	putative multidrug or homocysteine efflux system

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,940,308	0	A	G	100.0%	115.5 / NA	32	L102P (CTG→CCG)	hsrA	putative multidrug or homocysteine efflux system
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (16/16); total (16/16)

CACCAGACCCGGCATGGCGACAAAATTCAATACTGGAAGAAGTTCATTACGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCAGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCGGCTAGCCATCCGCTTACCGGAATAAGCATCGCCACCGTCAGCGTATAACTG  >  NC_000913/3940175‑3940454

caccaGACCCGGCATGGCGACAAAATTCAATACTGGAAGAAGTTCATTACGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAAtt                                                                                                                                    >  2:132747/1‑150 (MQ=255)

                gCGACAAAATTCAATACTGGAAGAAGTTCATTACGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGcc                                                                                                                    >  1:241588/1‑150 (MQ=255)

                  gACAAAATTCAATACTGGAAGAAGTTCATTACGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCaga                                                                                                                 <  2:431972/151‑1 (MQ=255)

                     aaaaTTCAATACTGGAAGAAGTTCATTACGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGaa                                                                                                              <  1:247096/151‑1 (MQ=255)

                        aTTCAATACTGGAAGAAGTTCATTACGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAAccc                                                                                                           <  1:220346/151‑1 (MQ=255)

                        aTTCAATACTGGAAGAAGTTCATTACGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAAccc                                                                                                           <  1:624810/151‑1 (MQ=255)

                            aaTACTGGAAGAAGTTCATTACGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAAtg                                                                                                       >  2:309104/1‑151 (MQ=255)

                               aCTGGAAGAAGTTCATTACGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAAtgtg                                                                                                     >  2:552140/1‑150 (MQ=255)

                                     agaagTTCATTACGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGAc                                                                                              <  2:408011/151‑1 (MQ=255)

                                               tACGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCaa                                                                                     <  2:491878/150‑1 (MQ=255)

                                                aCGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAgg                                                                                   <  1:613170/151‑1 (MQ=255)

                                                  gAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAggg                                                                                  >  2:314416/1‑150 (MQ=255)

                                                   aGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGt                                                                                 >  2:327686/1‑150 (MQ=255)

                                                   aGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAAGTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTa                                                                                <  1:412416/151‑1 (MQ=255)

                                                     gATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTaa                                                                               >  2:626346/1‑150 (MQ=255)

                                                      aTAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTaaa                                                                              >  1:62001/1‑150 (MQ=255)

                                                          gcgcgcAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGc                                                                         >  1:171298/1‑151 (MQ=255)

                                                             cgcAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGAc                                                                      >  1:34636/1‑151 (MQ=255)

                                                              gcAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGAcg                                                                     >  2:442292/1‑151 (MQ=255)

                                                                       ccAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGaa                                                            <  1:275970/151‑1 (MQ=255)

                                                                          gCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCg                                                         <  2:174149/151‑1 (MQ=255)

                                                                              aGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCg                                                     <  2:39103/151‑1 (MQ=255)

                                                                                 aaCAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCg                                                     >  1:357124/1‑148 (MQ=255)

                                                                                        atcatcatTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCGGCTAGCCATc                                           <  2:212944/151‑1 (MQ=255)

                                                                                          catcatTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAGCCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCGGCTAGCCATcca                                         <  1:5398/151‑2 (MQ=255)

                                                                                                 gcgcCGCCTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCGGCTAGCCATCCGCTTACCg                                  <  2:53011/151‑1 (MQ=255)

                                                                                                      gccTATCCCCTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCGGCTAGCCATCCGCTTACCGGAAt                              >  2:316488/1‑150 (MQ=255)

                                                                                                             cccTGAATAACCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCGGCTAGCCATCCGCTTACCGGAATAAGCATCg                      >  2:5158/1‑151 (MQ=255)

                                                                                                                     aaCCCGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCGGCTAGCCATCCGCTTACCGGAATAAGCATCGCCACCGTc              >  1:548715/1‑151 (MQ=255)

                                                                                                                        ccGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCGGCTAGCCATCCGCTTACCGGAATAAGCATCGCCACCGTCAGc           <  1:608963/151‑1 (MQ=255)

                                                                                                                         cGGAAGACAACCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCGGCTAGCCATCCGCTTACCGGAATAAGCATCGCCACCGTCAGCg          <  1:132743/151‑1 (MQ=255)

                                                                                                                                 aaCCGGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCGGCTAGCCATCCGCTTACCGGAATAAGCATCGCCACCGTCAGCGTATAACtg  >  2:640314/1‑151 (MQ=255)

CACCAGACCCGGCATGGCGACAAAATTCAATACTGGAAGAAGTTCATTACGAGGATAAGCGCGCAGTAAGGCCAGCCGAGCAACAGGCATCATCATTGCGCCGCCTATCCCCTGAATAACCCGGAAGACAACCAGCTGTGGTAGCGAATTAGAAAGTGCGCAGGCCAGAGAACCCAATGTGAACAGACTCACGGCAAGGGTAAAAATGCGACGCGTACCGAAGCGATCGGCTAGCCATCCGCTTACCGGAATAAGCATCGCCACCGTCAGCGTATAACTG  >  NC_000913/3940175‑3940454

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A