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
A13 F55 I1 R1	10	36.2	825780	86.3%	712648	148.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	1,869,936	A→T	L196Q (CTG→CAG)	ytmP ←	possible kanamycin kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,869,936	0	A	T	100.0%	83.2 / NA	25	L196Q (CTG→CAG)	ytmP	possible kanamycin kinase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (13/12); total (13/12)

TTTTGCTCTTCATACCATTGAACAAGACCTATAGATTGAATTACCGTATACCATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCAGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAATTATTATGATTCACATCACCATGTACAACAGTGAAAAAACGCGAATCTAAACTCGGT  >  CP000730/1869792‑1870079

ttttTCTCTTTATACCATTGAACAAGACCTATAGATTGAATTACCGTATACCATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAgctgca                                                                                                                                              >  2:208366/1‑148 (MQ=255)

        ttCATACCATTGAACAAGACCTATAGATTGAATTACCGTATACCATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGata                                                                                                                                      <  1:176427/148‑1 (MQ=255)

                 ttGAACAAGACCTATAGATTGAATTACCGTATACCATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGcc                                                                                                                             <  1:357075/148‑1 (MQ=255)

                 ttGAACAAGACCTATAGATTGAATTACCGTATACCATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGcc                                                                                                                             >  1:165514/1‑148 (MQ=255)

                 ttGAACAAGACCTATAGATTGAATTACCGTATACCATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGcc                                                                                                                             >  1:92804/1‑148 (MQ=255)

                                 gATTGAATTACCGTATACCATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTg                                                                                                             <  2:10268/148‑1 (MQ=255)

                                      aaTTACCGTATACCATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCt                                                                                                        <  2:55201/148‑1 (MQ=255)

                                      aaTTACCGTATACCATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCt                                                                                                        <  2:132643/148‑1 (MQ=255)

                                         tACCGTATACCATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTcc                                                                                                     >  1:245775/1‑148 (MQ=255)

                                             gTATACCATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAAt                                                                                                 >  1:95624/1‑148 (MQ=255)

                                                   cATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCTATCATTGCACTTTCCCAATCAACTa                                                                                           >  1:284220/1‑148 (MQ=255)

                                                   cATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTa                                                                                           >  1:158945/1‑148 (MQ=255)

                                                        cATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCGGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAAt                                                                                      <  2:328159/148‑1 (MQ=255)

                                                              tttatttaAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCa                                                                                <  1:374607/148‑1 (MQ=255)

                                                                                      aaCACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTGGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAatta                                                        >  2:247117/1‑148 (MQ=255)

                                                                                       acacCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAattat                                                       <  1:387270/148‑1 (MQ=255)

                                                                                       acacCATATGTTTCAAGACAAACAAACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAattat                                                       <  1:3572/148‑1 (MQ=255)

                                                                                                   tCAATCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAATTATTATGATTCACAt                                           >  1:82908/1‑148 (MQ=255)

                                                                                                   tCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAATTATTATGATTCACAt                                           >  1:167159/1‑148 (MQ=255)

                                                                                                         cATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAATTATTATGATTCACATCACCAt                                     <  1:135639/148‑1 (MQ=255)

                                                                                                         cATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCTGCATTCCGATATCAATTGCAGGGTCTGCAATCATTGCCCCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAATTATTATGATTCACATCACCAt                                     <  1:247209/148‑1 (MQ=255)

                                                                                                                                aaCATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAATTATTATGATTCACATCACCATGTACAACAGTGAAAAAACGCGaa              >  2:70180/1‑148 (MQ=255)

                                                                                                                                  cATAGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAATTATTATGATTCACATCACCATGTACAACAGTGAAAAAACGCGAATc            >  1:291882/1‑148 (MQ=255)

                                                                                                                                     aGTTGTAAAGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAATTATTATGATTCACATCACCATGTACAACAGTGAAAAAACGCGAATCTaa         <  2:245775/148‑1 (MQ=255)

                                                                                                                                            aaGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAATTATTATGATTCACATCACCATGTACAACAGTGAAAAAACGCGAATCTAAACTCGGt  >  2:120350/1‑148 (MQ=255)

                                                                                                                                            aaGCTGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAATTATTATGATTCACATCACCATGTACAACAGTGAAAAAACGCGAATCTAAACTCGGt  >  1:118122/1‑148 (MQ=255)

TTTTGCTCTTCATACCATTGAACAAGACCTATAGATTGAATTACCGTATACCATTTCATACGTTTATTTAAATTCAAGCTCTCTTGAACACCATATGTTTCAAGCCATTCAGACCATTGTTGTTGTGGAACATAGTTGTAAAGCAGCATTCCGATATCAATTGCCGGGTCTGCAATCATTGCACCTTCCCAATCAACTAAAAATAGTTCATCTCGATCGGATAATAACCAATTATTATGATTCACATCACCATGTACAACAGTGAAAAAACGCGAATCTAAACTCGGT  >  CP000730/1869792‑1870079

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