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
A12 F28 I1 R1	227	52.0	1764248	99.3%	1751898	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,696,376	A→G	intergenic (‑305/+86)	uidA ← / ← uidR	beta‑glucuronidase/DNA‑binding transcriptional repressor UidR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,696,376	0	A	G	100.0%	117.8 / NA	34	intergenic (‑305/+86)	uidA/uidR	beta‑glucuronidase/DNA‑binding transcriptional repressor UidR
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (17/17); total (17/17)

AGATCGCATTAATCTTTAAAACAGCGTTGACAGAAGCCATAAAATAAGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCG  >  NC_000913/1696242‑1696497

aGATCGCATTAATCTTTAAAACAGCGTTGACAGAAGCCATAAAATAAGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCgg                                                                                                                      <  2:478616/140‑1 (MQ=255)

  aTCGCATTAATCTTTAAAACAGCGTTGACAGAAGCCATAAAATAAGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGa                                                                                                                    >  1:305382/1‑140 (MQ=255)

    cGCATTAATCTTTAAAACAGCGTTGACAGAAGCCATAAAATAAGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAg                                                                                                                  >  1:335358/1‑140 (MQ=255)

      cATTAATCTTTAAAACAGCGTTGACAGAAGCCATAAAATAAGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGa                                                                                                                >  2:694891/1‑140 (MQ=255)

                tAAAACAGCGTTGACAGAAGCCATAAAATAAGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGc                                                                                                      >  1:84124/1‑140 (MQ=255)

                  aaaCAGCGTTGACAGAAGCCATAAAATAAGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGcac                                                                                                    <  1:323305/140‑1 (MQ=255)

                        cGTTGACAGAAGCCATAAAATAAGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGaa                                                                                              >  1:375262/1‑140 (MQ=255)

                        cGTTGACAGAAGCCATAAAATAAGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGaa                                                                                              >  1:68929/1‑140 (MQ=255)

                                      aTAAAATAAGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGaaa                                                                                <  2:375262/140‑1 (MQ=255)

                                             aaGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGc                                                                         <  2:68929/140‑1 (MQ=255)

                                              aGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGca                                                                        <  1:622446/140‑1 (MQ=255)

                                              aGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGca                                                                        <  1:694891/140‑1 (MQ=255)

                                              aGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGca                                                                        <  2:154852/140‑1 (MQ=255)

                                              aGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGca                                                                        <  2:84124/140‑1 (MQ=255)

                                                cAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGcaca                                                                      >  2:783834/1‑140 (MQ=255)

                                                           tcgttcgAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGc                                                                         <  1:733740/126‑1 (MQ=255)

                                                           tcgttcgAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGc                                                                         >  2:733740/1‑126 (MQ=255)

                                                           tcgttcgAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAg                                                           >  1:308361/1‑140 (MQ=255)

                                                               tcgAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCccg                                                       <  1:783834/140‑1 (MQ=255)

                                                               tcgAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCccg                                                       <  1:596805/140‑1 (MQ=255)

                                                                 gAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCccgcc                                                     <  1:344984/140‑1 (MQ=255)

                                                                         tGGGAACGATAAACTCTCATGTCATATGGTTACAGTGAATATTTTGGGGGAAATTCTCCGAGGCCGAGAAGTATAATTTTTGCCCAGAAAAATTACGATATAAAACTCGGCCACAGTGATCACCAGCCCGACGAAAAaga                                             <  2:258587/140‑1 (MQ=255)

                                                                           ggAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAagaga                                           <  2:308361/140‑1 (MQ=255)

                                                                                gATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGaa                                      >  2:833384/1‑140 (MQ=255)

                                                                                 aTAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAAt                                     <  2:305382/140‑1 (MQ=255)

                                                                                          cATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCg                            >  2:225213/1‑140 (MQ=255)

                                                                                             gACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGtt                         <  2:335358/140‑1 (MQ=255)

                                                                                              aCATATGACTACAGGGAATATTTTGGGGGGAATTCTCCGGGGCCGTGAAGGATAATTTGTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGGTa                        >  2:849019/1‑140 (MQ=255)

                                                                                                   tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATa                   >  1:692470/1‑140 (MQ=255)

                                                                                                   tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATa                   >  1:308760/1‑140 (MQ=255)

                                                                                                   tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATa                   >  2:843046/1‑140 (MQ=255)

                                                                                                     gCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATa                   >  1:877628/1‑138 (MQ=255)

                                                                                                     gCTACAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATa                   <  2:877628/138‑1 (MQ=255)

                                                                                                         cAGTGAATATTTTGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCa             >  2:742532/1‑140 (MQ=255)

                                                                                                                  ttttGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATcgcg    <  1:253279/140‑1 (MQ=255)

                                                                                                                    ttGGGGGGAATTCTCCGAGGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATcgcgcg  >  2:606812/1‑140 (MQ=255)

AGATCGCATTAATCTTTAAAACAGCGTTGACAGAAGCCATAAAATAAGCAACCGAACGTTCGTTCGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCG  >  NC_000913/1696242‑1696497

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