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
A7 F123 I0 R1	46	52.8	1143652	95.1%	1087613	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	607,884	G→A	100%	R209* (CGA→TGA)	dck ←	deoxynucleoside kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	607,884	0	G	A	100.0%	130.2 / ‑6.5	44	R209* (CGA→TGA)	dck	deoxynucleoside kinase
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (17/26); minor base T (0/1); total (17/27)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TAATGTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCGAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGTCATAGCGTTTAAATAGCT  >  CP000730/607758‑608012

tattttATTCGATAGAATTGATAAAATACTGGATCATATCTATGGAATATACATTGAATATAAACATATACGCTATGGCTTTAGTCTTTTATCGTGTATCTACTTGTCGATCTGTTTTGATAATTCAAGCAATTTTGTTTa                                                                                                                    <  2:263482/136‑1 (MQ=255)

   tGTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCACGCAATTTTGTTTATct                                                                                                                 >  2:85852/1‑140 (MQ=255)

    gTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCAt                                                                                                                >  1:517265/1‑141 (MQ=255)

            aaGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTa                                                                                                        <  2:60355/140‑1 (MQ=255)

              gAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTaaa                                                                                                      >  2:244872/1‑141 (MQ=255)

              gAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAACAATTTTGTTTATCATAACATTTaaa                                                                                                      >  2:330072/1‑141 (MQ=255)

              gAATTGATAAAATAATCGATAATAGCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGCCGATAGCGCGGAGTAATACAAGCAATTTTGTTTATTATAGGATTTaaa                                                                                                      >  2:545268/1‑141 (MQ=255)

                    aTAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCg                                                                                                >  1:538852/1‑141 (MQ=255)

                    aTAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCg                                                                                                <  1:87155/141‑1 (MQ=255)

                      aaaaTAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCggg                                                                                              <  1:395716/141‑1 (MQ=255)

                       aaaTAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTATATATCCTGGGATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCgggg                                                                                             <  1:559796/141‑1 (MQ=255)

                               gATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATg                                                                                     <  1:228820/141‑1 (MQ=255)

                               gATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATg                                                                                     <  1:255599/141‑1 (MQ=255)

                               gATAATATCTATGCAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATg                                                                                     <  2:194021/141‑1 (MQ=255)

                                       cTATGGAATATACATTGAATATAAACATATACGCTATGCCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCCGGGTCCTTATGGATATCat                                                                             <  1:371550/141‑1 (MQ=255)

                                         attgtatatACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTCCTCATGGAGCGGCTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATAatat                                                                           <  1:389121/136‑1 (MQ=255)

                                             aaTATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCAt                                                                       <  2:172438/141‑1 (MQ=255)

                                             aaTATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCAt                                                                       <  1:99532/141‑1 (MQ=255)

                                              atatACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTGGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGGTGTCATATGCAtt                                                                      >  2:378278/1‑141 (MQ=255)

                                                 taCATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTTTGGATATCATATTCATTAat                                                                   >  1:472136/1‑141 (MQ=255)

                                                 taCATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAat                                                                   >  1:83438/1‑141 (MQ=255)

                                                 taCATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAat                                                                   <  1:454976/141‑1 (MQ=255)

                                                   cATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAatat                                                                 >  1:522452/1‑141 (MQ=255)

                                                   cATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAatat                                                                 <  2:354127/141‑1 (MQ=255)

                                                     ttGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGCCCGTATGGATATCATATTCATTAATATTg                                                               >  2:91338/1‑141 (MQ=255)

                                                        aaTATAAACATAGACGGTACGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATa                                                            <  1:240556/141‑1 (MQ=255)

                                                         atatAAACATATACGCTTTGTCTTTAGTCTTTTTTCTTACTTCTAGTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTCTCATAGGATTTAAAGATTCGGGGTCCTTATAGATATCATATTCATTAATATTGATAc                                                           <  2:341989/141‑1 (MQ=255)

                                                             aaaCATATACGCTATGTCTTTAGTCGTTTATCGTTTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTAc                                                       <  2:231677/141‑1 (MQ=255)

                                                              aaCATATACGCTATGTCTTTAGTCTGTTATCGTGTATCTACTTGTCGATATGTTTGAATAAGTCAAGCAATTTTATTTATCATAGGTTTTCAAGATTCGGGGTCCTTATGCATATCATATTCATTAATATTGATACGTACa                                                      <  1:50859/141‑1 (MQ=255)

                                                                cATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAAc                                                    >  2:269541/1‑141 (MQ=255)

                                                                  tataCGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTg                                                  <  1:513459/141‑1 (MQ=255)

                                                                          ttGTATTTAGGCTTTTATCGTGTATCTACTTTGCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCa                                          <  2:538480/140‑1 (MQ=255)

                                                                          aTGTCTTTAGTCTTTTATCGTGTTTCTACTTGTCGAAATGTTTGAATAATTCTAGCAATTTTGTTTATCATAGGAATTAAAGATTCGGGGTCCTTATGGATATCATATTCACTAATATTGACACGTACAACTGGACATGCa                                          <  1:98215/141‑1 (MQ=255)

                                                                             tCTTTAGTCTGTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGATCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTa                                       <  1:369209/141‑1 (MQ=255)

                                                                               tttAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTaaa                                     <  1:346446/141‑1 (MQ=255)

                                                                                 tAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGc                                   >  1:567296/1‑141 (MQ=255)

                                                                                     cTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTAtt                               <  1:305848/141‑1 (MQ=255)

                                                                                            cGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCaa                        >  2:107604/1‑141 (MQ=255)

                                                                                                  tCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCTGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGTCa                  <  2:517265/141‑1 (MQ=255)

                                                                                                   gtACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGTCAt                 >  2:462762/2‑141 (MQ=255)

                                                                                                    tACTTGTCGACAGGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGTCATa                <  2:165678/141‑1 (MQ=255)

                                                                                                        tGTCGGTATGTTTGAATAAGTCAAGCAATTGTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGTCATAGCGt            <  2:228337/141‑1 (MQ=255)

                                                                                                                  tttGAATAATTCAAGCCATTTTGATAATAATAGGATTTAAAGATTCGGGGTCCTTATGGCTATCATATTAATTAATATGAAAACGTACAACTGGACATGCGTTAAAGCTATTAATCCAAAGTACAAAGCGTTTAAATCGCt  >  2:221358/1‑141 (MQ=255)

                                                                                                                  tttGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTAACAATAAAGAAGGAGATGATATTGACCCAAATTGAAATGAATTACTTGATTTGCATTAAATCTATTAATCGAATCGTCATATCGTTTAAATAGCt  >  2:402416/1‑141 (MQ=255)

TAATGTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCGAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGTCATAGCGTTTAAATAGCT  >  CP000730/607758‑608012

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A