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
A1 F169 I1 R1	62	44.4	970160	98.1%	951726	147.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	744,375	A→T	I506F (ATT→TTT)	melR_1 →	Melibiose operon regulatory protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	744,375	0	A	T	100.0%	160.6 / NA	46	I506F (ATT→TTT)	melR_1	Melibiose operon regulatory protein
Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (19/27); total (19/27)

AATAAAGCGACTTAAATTCGATTCGTTAATAATAGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATATTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGACATTAAGTGCGCTGTATCACAACTTTGATGGCTTTGGATTAA  >  USA300TCH1516_ALE/744233‑744516

aaTAAAGCGACTTAAATTCGATTCGTTAATAATAGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGaa                                                                                                                                          <  3:14269/148‑1 (MQ=255)

      gCGACTTAAATTCGATTCGTTAATAATAGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGaa                                                                                                                                    >  3:104416/1‑148 (MQ=255)

      gCGACTTAAATTCGATTCGTTAATAATAGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGaa                                                                                                                                    >  3:304577/1‑148 (MQ=255)

       cGACTTAAATTCGATTCGTTAATAATAGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGaaa                                                                                                                                   <  4:142390/148‑1 (MQ=255)

       cGACTTAAATTCGATTCGTTAATAATAGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGaaa                                                                                                                                   <  4:140497/148‑1 (MQ=255)

           ttAAATTCGATTCGTTAATAATAGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCt                                                                                                                               <  3:66073/148‑1 (MQ=255)

           ttAAATTCGATTCGTTAATAATAGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCt                                                                                                                               <  3:161419/148‑1 (MQ=255)

                   gattcgTTAATAATAGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTc                                                                                                                       <  3:19445/148‑1 (MQ=255)

                          taataaTAGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGt                                                                                                                >  3:359652/1‑148 (MQ=255)

                           aataatAGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAATCAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGtt                                                                                                               <  3:248433/148‑1 (MQ=255)

                                 aGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAAt                                                                                                         <  4:80445/148‑1 (MQ=255)

                                 aGATAATGCAAATTTAAGTAGACATTCTTTGGAAAGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAAt                                                                                                         >  4:415789/1‑148 (MQ=255)

                                   aTAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCa                                                                                                       >  4:340152/1‑148 (MQ=255)

                                    tAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCAt                                                                                                      >  3:250023/1‑148 (MQ=255)

                                     aaTGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATa                                                                                                     <  4:385196/148‑1 (MQ=255)

                                      aTGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGaaa                                                                                                           >  2:6558/1‑141 (MQ=255)

                                         cAAATTTAAGTAGCCCTTATTTGATGGGGTAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACt                                                                                                 <  4:217985/148‑1 (MQ=255)

                                          aaaTTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCa                                                                                                       <  1:2216/141‑1 (MQ=255)

                                          aaaTTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTg                                                                                                <  3:327056/148‑1 (MQ=255)

                                            aTTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCt                                                                                              <  4:380436/148‑1 (MQ=255)

                                            aTTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCt                                                                                              <  4:51690/148‑1 (MQ=255)

                                                aaGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTtaat                                                                                          <  4:107761/148‑1 (MQ=255)

                                                  gTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTtaataa                                                                                        <  3:59877/148‑1 (MQ=255)

                                                          tATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAAc                                                                                >  3:338150/1‑148 (MQ=255)

                                                          tATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAAc                                                                                >  4:63754/1‑148 (MQ=255)

                                                                   ggggAAAGTGATGAGTTACTATTCAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACga                                                                              <  1:57918/141‑1 (MQ=255)

                                                                            gatgaGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGTTGATTTTTCTAAATGTTGAAAATCATAAACTGATTAATAATAAAGAACGAGATCTaatt                                                                     >  1:40157/1‑139 (MQ=255)

                                                                                 gTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTACATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCa                                                         <  4:160304/148‑1 (MQ=255)

                                                                                  ttACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCAt                                                        <  3:116413/148‑1 (MQ=255)

                                                                                  ttACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCAt                                                        <  3:287794/148‑1 (MQ=255)

                                                                                         tGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCAt                                                        >  2:58065/1‑141 (MQ=255)

                                                                                            aaaaTATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATaa                                              >  4:321959/1‑148 (MQ=255)

                                                                                             aaaTATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAg                                             <  4:315656/148‑1 (MQ=255)

                                                                                               atatTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGAc                                           >  3:16460/1‑148 (MQ=255)

                                                                                               atatTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGAc                                           >  3:303323/1‑148 (MQ=255)

                                                                                                       cATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTGAATAATAAAGAACGAGATCTAGGTAATAGTGCTCCATTAATTTATAAGACATTAAGTg                                   >  3:144768/1‑148 (MQ=255)

                                                                                                         ttttAAAAATTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGACATTAAGTgcg                                 >  3:389442/1‑148 (MQ=255)

                                                                                                              aaaaTTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGACATTAAGTGCGCTGTa                            >  3:259525/1‑148 (MQ=255)

                                                                                                                aaTTTAAAACAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGACATTAAGTGCGCTGTATc                          <  3:415789/148‑1 (MQ=255)

                                                                                                                     aaaaCAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGACATTAAGTGCGCTGTATCACAAc                     <  4:105026/148‑1 (MQ=255)

                                                                                                                     aaaaCAAGTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGACATTAAGTGCGCTGTATCACAAc                     <  3:332514/148‑1 (MQ=255)

                                                                                                                            gTAATTAATGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGACATTAAGTGCGCTGTATCACAACTTTGATg              <  3:2379/148‑1 (MQ=255)

                                                                                                                               attaatGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGACATTAAGTGCGCTGTATCACAACTTTGATGGCt           <  3:370191/148‑1 (MQ=255)

                                                                                                                                   atGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGACATTAAGTGCGCTGTATCACAACTTTGATGGCTTTgg       <  4:238259/148‑1 (MQ=255)

                                                                                                                                    tGAATTGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGACATTAAGTGCGCTGTATCACAACTTTGATGGCTTTGGa      >  4:353012/1‑148 (MQ=255)

                                                                                                                                        ttGGATTTTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGACATTAAGTGCGCTGTATCACAACTTTGATGGCTTTGGATTaa  >  3:137787/1‑148 (MQ=255)

AATAAAGCGACTTAAATTCGATTCGTTAATAATAGATAATGCAAATTTAAGTAGCCCTTATTTGATGGGGGAAAGTGATGAGTTACTATTGAAAAATATTTTGCATTTTAAAAATTTAAAACAAGTAATTAATGAATTGGATATTGAACAAGAAAAGCTGATTTTTCTAAATGTTGAAAATCATAAACTGCTTAATAATAAAGAACGAGATCTAAGTAATAGTGCTCCATTAATTTATAAGACATTAAGTGCGCTGTATCACAACTTTGATGGCTTTGGATTAA  >  USA300TCH1516_ALE/744233‑744516

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A