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
A17 F109 I1 R1	28	33.5	644026	99.3%	639517	151.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	1,063,614	T→G	Y292S (TAT→TCT)	brpA ←	LytR family transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,063,614	0	T	G	100.0%	150.1 / NA	40	Y292S (TAT→TCT)	brpA	LytR family transcriptional regulator
Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (25/15); total (25/15)

ATCTAAAGGCGTTAATGGTATTAATGAACCATAATGATTAATGACACGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAATAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCTTTGCATTTTTACCTACAATTTGAATCACGT  >  CP000730/1063466‑1063761

atCTAACGGCGTTAATGGTATTAATGAACCATAATGATTAATGACACGTTGCTCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTNGCATATTTTTGANTGCTTTCAACACTTGGATGATAagag                                                                                                                                                   <  1:166644/151‑1 (MQ=255)

 tCTAAAGGCGTTAATGGTATTAATGAACCATAATGATTAATGACACGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGt                                                                                                                                                  <  2:196374/151‑1 (MQ=255)

        gCGTTAATGGTATTAATGAACCATAATGATTAATGACACGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATAcc                                                                                                                                           <  1:295996/151‑1 (MQ=255)

                 gTATTAATGAACCATAATGATTAATGACACGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACat                                                                                                                                  >  1:176929/1‑151 (MQ=255)

                 gTATTAATGAACCATAATGATTAATGACACGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACat                                                                                                                                  >  1:295245/1‑151 (MQ=255)

                       aTGAACCATAATGATTAATGACACGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATatcatc                                                                                                                            <  2:282932/151‑1 (MQ=255)

                       aTGAACCATAATGATTAATGACACGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATatcatc                                                                                                                            <  2:38650/151‑1 (MQ=255)

                           aCCATAATGATTAATGACACGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCAGTTAACATATCATCTTTa                                                                                                                        >  1:244691/1‑151 (MQ=255)

                            ccATAATGATTAATGACACGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTAc                                                                                                                       >  1:131780/1‑151 (MQ=255)

                            ccATAATGATTAATGACACGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTAc                                                                                                                       >  2:302617/1‑151 (MQ=255)

                                       aaTGACACGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCGTCTTTACCTTTTAATTgc                                                                                                            <  2:97260/151‑1 (MQ=255)

                                            cacGTTGATCTAAGAAATCATTTTTTTTTTTTTTTTGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACCCTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGt                                                                                                       >  2:162391/1‑151 (MQ=255)

                                              cGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTAAACACTTGGATGATAAGAGTAAATCACCTTTAACCTATCATCTTTACCTTTTAATTGCGCAGttt                                                                                                     >  1:64548/1‑151 (MQ=255)

                                                 tGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTaa                                                                                                  >  2:246359/1‑151 (MQ=255)

                                                   aTCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAAtt                                                                                                <  1:35850/151‑1 (MQ=255)

                                                            aTCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAAcatca                                                                                       >  1:300002/1‑151 (MQ=255)

                                                                        aTTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTAc                                                                           >  2:227426/1‑151 (MQ=255)

                                                                              aGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACAttttt                                                                     >  1:77827/1‑151 (MQ=255)

                                                                               ggTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCCTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTg                                                                    >  1:128549/1‑151 (MQ=255)

                                                                                  gATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCCACATCATTTGTTAAGTACATTTTTGCTa                                                                 <  2:128285/151‑1 (MQ=255)

                                                                                     aaTTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAg                                                              >  1:189072/1‑151 (MQ=255)

                                                                                        tCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAACGCtt                                                           >  2:107842/1‑151 (MQ=255)

                                                                                         cTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCttt                                                          <  2:169423/151‑1 (MQ=255)

                                                                                             gTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAAtt                                                      >  2:237558/1‑151 (MQ=255)

                                                                                             gTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAAtt                                                      >  1:179840/1‑151 (MQ=255)

                                                                                             gTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAAtt                                                      >  2:101996/1‑151 (MQ=255)

                                                                                                   aCGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCagag                                                <  2:33159/151‑1 (MQ=255)

                                                                                                         taagtTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGagttagtt                                          <  2:244691/151‑1 (MQ=255)

                                                                                                            gtTTGCATATTTTTGAATGGTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTaaa                                       <  2:133070/151‑1 (MQ=255)

                                                                                                            gtTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTaaa                                       >  2:193223/1‑151 (MQ=255)

                                                                                                            gtTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTaaa                                       <  1:220786/151‑1 (MQ=255)

                                                                                                                   tatTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCt                                >  1:142493/1‑151 (MQ=255)

                                                                                                                   tatTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCt                                <  1:52867/151‑1 (MQ=255)

                                                                                                                   tatTTTTGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCt                                >  1:94120/1‑151 (MQ=255)

                                                                                                                      ttttGAATGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCTTTg                             <  1:304925/151‑1 (MQ=255)

                                                                                                                             tGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCTTTGCAttttt                      >  1:44020/1‑151 (MQ=255)

                                                                                                                             tGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCTTTGCAttttt                      >  2:148596/1‑151 (MQ=255)

                                                                                                                             tGCTTTCAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCTTTGCAttttt                      >  1:156689/1‑151 (MQ=255)

                                                                                                                                   cAACACTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCTTTGCATTTTTACCTAc                <  1:162391/151‑1 (MQ=255)

                                                                                                                                        cTTGGATGATAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCTTTGCATTTTTACCTACAAttt           >  2:315041/1‑151 (MQ=255)

                                                                                                                                              tgatAAGAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCTTTGCATTTTTACCTACAATTTGAATCa     >  1:39020/1‑151 (MQ=255)

                                                                                                                                                 taagaGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCTTTGCATTTTTACCTACAATTTGAATCACGt  >  1:257234/1‑151 (MQ=255)

ATCTAAAGGCGTTAATGGTATTAATGAACCATAATGATTAATGACACGTTGATCTAAGAAATCATTTTTATCATTAATAGGTGATAATTCTAAGTCTTTACGAAGTAAGTTTGCATATTTTTGAATGCTTTCAACACTTGGATGATAATAGTAAATACCATTTAACATATCATCTTTACCTTTTAATTGCGCAGTTTTAATTTCAACATCATTTGTTAAGTACATTTTTGCTAAAGCTTTAATTTCAGAGTTAGTTAAATTATGCTTTGCATTTTTACCTACAATTTGAATCACGT  >  CP000730/1063466‑1063761

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A