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
A6 F28 I1 R1	153	60.1	2040486	99.3%	2026202	138.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,003,939	G→A	A80A (GCC→GCT)	rarD ←	putative transporter RarD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,003,939	0	G	A	100.0%	137.4 / NA	40	A80A (GCC→GCT)	rarD	putative transporter RarD
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (22/18); total (22/18)

CGGAATCGCTCGCCGAGGAAAATCATCCCCAGCACAATGTTCACCAGCGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACGGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAG  >  NC_000913/4003802‑4004064

cggAATCGCTCGCCGAGGAAAATCATCCCCAGCACAATGTTCACCAGCGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGc                                                                                                                             <  1:46032/140‑1 (MQ=255)

 ggAATCGCTCGCCGAGGAAAATCATCCCCAACACAATGTTCACCAGCGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATcagcacagca                                                                                                                            <  2:930709/140‑1 (MQ=255)

            ccGAGGAAAATCATCCCCAGCACAATGTTCACCAGCGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAg                                                                                                                 >  1:186723/1‑140 (MQ=255)

                         tcCCCAGCACAATGTTCACCAGCGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTc                                                                                                    >  2:760803/1‑140 (MQ=255)

                             cAGCACAATGTTCACCAGCGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCtgtg                                                                                                <  2:186723/140‑1 (MQ=255)

                              aGCACAATGTTCACCAGCGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTgg                                                                                               >  1:573486/1‑140 (MQ=255)

                                          aCCAGCGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAg                                                                                   <  2:71050/140‑1 (MQ=255)

                                               cGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAg                                                                                   <  1:596102/135‑1 (MQ=255)

                                               cGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAg                                                                                   >  2:596102/1‑135 (MQ=255)

                                               cGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGttt                                                                              >  2:627452/1‑140 (MQ=255)

                                               cGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGttt                                                                              >  1:576123/1‑140 (MQ=255)

                                                 ggTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGATGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGttttt                                                                            >  2:708963/1‑140 (MQ=255)

                                                            tAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCa                                                                 >  1:322131/1‑140 (MQ=255)

                                                               ccAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTg                                                              >  1:708433/1‑140 (MQ=255)

                                                                   ggCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTggcgg                                                          >  2:365105/1‑140 (MQ=255)

                                                                    gCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTggcggc                                                         <  1:627452/140‑1 (MQ=255)

                                                                     cTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCa                                                        >  1:972918/1‑140 (MQ=255)

                                                                       cGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCaaa                                                      <  1:365105/140‑1 (MQ=255)

                                                                         cTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATg                                                    >  2:405150/1‑140 (MQ=255)

                                                                            ccAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCtc                                                 <  1:551423/140‑1 (MQ=255)

                                                                              aGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCtcat                                               <  2:573486/140‑1 (MQ=255)

                                                                              aGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCtca                                                <  2:682788/139‑1 (MQ=255)

                                                                              aGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCtca                                                >  1:682788/1‑139 (MQ=255)

                                                                               gCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCtcatc                                              <  2:322131/140‑1 (MQ=255)

                                                                                    tGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGcac                                         <  2:708433/140‑1 (MQ=255)

                                                                                     ggTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGcacc                                        <  1:708963/140‑1 (MQ=255)

                                                                                               cACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGcac                                         <  2:900940/129‑1 (MQ=255)

                                                                                               cACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGcac                                         >  1:900940/1‑129 (MQ=255)

                                                                                               cACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGa                              >  1:601405/1‑140 (MQ=255)

                                                                                                 ccGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGaaa                            <  1:760803/140‑1 (MQ=255)

                                                                                                 ccGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGaaa                            >  1:960521/1‑140 (MQ=255)

                                                                                                  cGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGca                                          >  2:776353/1‑125 (MQ=255)

                                                                                                  cGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGca                                          <  1:776353/125‑1 (MQ=255)

                                                                                                            aaCAGTAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGAAAAACTACCAGAt                 <  1:405150/140‑1 (MQ=255)

                                                                                                                 tAGCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCTGCAAATGCTCAGCAGCACCACCATAAAGAAAAACGACCAGATCAcgc            <  1:756833/140‑1 (MQ=255)

                                                                                                                   gCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGa          >  1:11304/1‑140 (MQ=255)

                                                                                                                   gCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGa          >  2:439179/1‑140 (MQ=255)

                                                                                                                   gCCAGTTGCCACCAATCAGCACAGCAGAGACTGCCAGCACAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGa          >  2:233299/1‑140 (MQ=255)

                                                                                                                        ttGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGAAAAACGAcc                     >  1:494726/1‑124 (MQ=255)

                                                                                                                        ttGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGAAAAACGAcc                     <  2:494726/124‑1 (MQ=255)

                                                                                                                        ttGCCACCAATCAGCACAGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGt     >  2:315670/1‑140 (MQ=255)

                                                                                                                                      cacaGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAg  <  1:272746/129‑1 (MQ=255)

CGGAATCGCTCGCCGAGGAAAATCATCCCCAGCACAATGTTCACCAGCGGGTTAATAAAGTAACCAAGGCTCGCTTCCAGCATATGGTGATTGTTCACCGCCCAGATAAACAGTAGCCAGTTGCCACCAATCAGCACGGCAGAGACTGCCAGCATAAAAATTTTCTGTGGCGTCTGAATCAGCGTTTTTAAATAGGACCACTGGCGGCAAATGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAG  >  NC_000913/4003802‑4004064

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A