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
A19 F42 I1 R1	11	27.7	610674	93.3%	569758	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	1,891,750	G→A	T86M (ACG→ATG)	rot ←	repressor of toxins Rot

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,891,750	0	G	A	100.0%	96.0 / NA	28	T86M (ACG→ATG)	rot	repressor of toxins Rot
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (16/12); total (16/12)

TTGAAATGAATAATAACTGTTCTTTCATCGTCAACAGGACGCTCTTTGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCGTCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCTGAAAATTGAGTTAATGTCACCCAAAAGTGTTTCTAATTGCAAAATTCCAAATACAGTG  >  CP000730/1891615‑1891887

ttGAAATGAATAATAACTGTTCTTTCATCGTCAACAGGACGCTCTTTGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATa                                                                                                                                      <  2:161182/141‑1 (MQ=255)

   aaaTGAATAATAACTGTTCTTTCATCGTCAACAGGACGCTCTTTGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGaa                                                                                                                                   >  1:289198/1‑141 (MQ=255)

   aaaTGAATAATAACTGTTCTTTCATCGTCAACAGGACGCTCTTTGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCATTAAGCATCATAGaa                                                                                                                                   >  1:253377/1‑141 (MQ=255)

         ataataACTGTTCTTTCATCGTCAACAGGACGCTCTTTGTAAATCCATTCTACTTCAGCTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCtttt                                                                                                                             <  1:295224/141‑1 (MQ=255)

                   ttCTTTCATCGTCAACAGGACGCTCTTTGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAg                                                                                                                   <  1:143225/141‑1 (MQ=255)

                                 aCAGGACGCTCTTTGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTTACTTCAACAAATCTGTCCATTTCTTTAATCATCATAGAACCTTTTTGCCATAAAGTTAGtaaaattaaa                                                                                                     >  1:136322/1‑141 (MQ=255)

                                 aCAGGACGCTCTTTGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGtaaaattaaa                                                                                                     >  1:103049/1‑141 (MQ=255)

                                 aCAGGACGCTCTTTGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGtaaaattaaa                                                                                                     >  1:118210/1‑141 (MQ=255)

                                 aCAGGACGCTCTTTGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGtaaaattaaa                                                                                                     >  1:156377/1‑141 (MQ=255)

                                       cGCTCTTTGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAACGCTATTAAAATTAAAATttct                                                                                               >  1:2512/1‑141 (MQ=255)

                                       cGCTCTTTGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATttct                                                                                               >  1:57719/1‑141 (MQ=255)

                                             ttGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTa                                                                                         <  1:254279/141‑1 (MQ=255)

                                             ttGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTa                                                                                         <  1:305028/141‑1 (MQ=255)

                                                        ttCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTa                                                                              <  2:124838/141‑1 (MQ=255)

                                                                 aaCTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTc                                                                     <  2:124298/141‑1 (MQ=255)

                                                                          attatACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCt                                                            <  2:98304/141‑1 (MQ=255)

                                                                          attatACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCt                                                            <  2:77788/141‑1 (MQ=255)

                                                                                        tACGCTTATACGGTTTAACTTCACTAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTACAATTTCTTCTCCTGACATTTTGTCTTCGCTTTCAATCTCGCTGAAAATTGAGTTaa                                              <  2:257931/141‑1 (MQ=255)

                                                                                        tACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCTGAAAATTGAGTTaa                                              <  2:25023/141‑1 (MQ=255)

                                                                                          cGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCTGAAAATTGAGTTAATg                                            >  2:255528/1‑141 (MQ=255)

                                                                                                     tttAACTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCTGAAAATTGAGTTAATGTCACCCAAAAg                                 <  2:73217/141‑1 (MQ=255)

                                                                                                         aCTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCTGAAAATTGAGTTAATGTCACCCAAAAGTGtt                             >  1:63741/1‑141 (MQ=255)

                                                                                                         aCTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCTGAAAATTGAGTTAATGTCACCCAAAAGTGtt                             >  2:170482/1‑141 (MQ=255)

                                                                                                         aCTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCTGAAAATTGAGTTAATGTCACCCAAAAGTGtt                             >  1:225685/1‑141 (MQ=255)

                                                                                                         aCTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCTGAAAATTGAGTTAATGTCACCCAAAAGTGtt                             >  1:235148/1‑141 (MQ=255)

                                                                                                         aCTTCAACAAATCTGTCCATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCTGAAAATTGAGTTAATGTAAccaacaactggt                             >  2:240165/1‑131 (MQ=255)

                                                                                                                          cATTTCTTTAAGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCTGAAAATTGAGTTAATGTCACCCAAAAGTGTTTCTAATTGCAAAATTcc            >  2:302711/1‑141 (MQ=255)

                                                                                                                                    aGCATCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCTGAAAATTGAGTTAATGTCACCCAAAAGTGTTTCTAATTGCAAAATTCCAAATACAgtg  >  1:58456/1‑141 (MQ=255)

TTGAAATGAATAATAACTGTTCTTTCATCGTCAACAGGACGCTCTTTGTAAATCCATTCTAATTCAACTAAATTATTATACGTTCTCGTACGCTTATACGGTTTAACTTCAACAAATCTGTCCATTTCTTTAAGCGTCATAGAACCTTTTTGCCATAAAGTTAGTAAAATTAAAATTTCTTCTCTAGACATTTTGTATTCGCTTTCAATCTCGCTGAAAATTGAGTTAATGTCACCCAAAAGTGTTTCTAATTGCAAAATTCCAAATACAGTG  >  CP000730/1891615‑1891887

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

GATK/CNVnator alignment

N/A