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
A15 F116 I1 R1	34	38.2	765948	97.1%	743735	148.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	1,087,670	A→T	L5I (TTA→ATA)	USA300HOU_1021 ←	hypothetical membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,087,670	0	A	T	100.0%	141.6 / NA	39	L5I (TTA→ATA)	USA300HOU_1021	hypothetical membrane protein
Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (11/28); total (11/28)

CCAAACCCCGTTTGTTAATTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTAAACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGTATAGTAACACTTTCCTACGCTAGTTCAAGCTAGATCA  >  CP000730/1087536‑1087801

ccAAACCCCGTTTGTTAATTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACAtt                                                                                                                        <  2:342574/148‑1 (MQ=255)

 cAAACCCCGTTTGTTAATTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACAttt                                                                                                                       <  2:56973/148‑1 (MQ=255)

 cAAACCCCGTTTGTTAATTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACAttt                                                                                                                       <  2:55552/148‑1 (MQ=255)

 cAAACCCCGTTTGTTAATTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACAttt                                                                                                                       <  2:4808/148‑1 (MQ=255)

   aaCCCCGTTTGTTAATTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACAttttt                                                                                                                     <  1:183647/148‑1 (MQ=255)

   aaCCCCGTTTGTTAATTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACAttttt                                                                                                                     <  1:184384/148‑1 (MQ=255)

   aaCCCCGTTTGTTAATTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACAttttt                                                                                                                     <  1:109611/148‑1 (MQ=255)

           ttGTTAATTGTTCGAGGTGAAGGTCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACAtcctc                                                                                                             <  2:118035/148‑1 (MQ=255)

           ttGTTAATTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACAtcctc                                                                                                             >  2:29260/1‑148 (MQ=255)

           ttGTTAATTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACAtcctc                                                                                                             >  2:209532/1‑148 (MQ=255)

                 aTTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATGAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTANCNCAGATANCTTTATACCTTTTGACATTTTTACATCCTCCtaata                                                                                                       <  1:41030/148‑1 (MQ=255)

                 aTTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCtaata                                                                                                       <  1:343173/148‑1 (MQ=255)

                      tCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATaaaaaa                                                                                                  <  1:308862/148‑1 (MQ=255)

                          ggTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAACAACGc                                                                                              >  1:181000/1‑148 (MQ=255)

                          ggTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGc                                                                                              <  2:88218/148‑1 (MQ=255)

                          ggTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGc                                                                                              >  1:224247/1‑148 (MQ=255)

                           gTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGca                                                                                             <  1:263936/148‑1 (MQ=255)

                                     gTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAAccatcca                                                                                   <  1:29985/148‑1 (MQ=255)

                                          ttGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATACATAGGa                                                                              >  1:162160/1‑148 (MQ=255)

                                                 ccATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTAt                                                                       <  1:266578/148‑1 (MQ=255)

                                                     tGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGt                                                                   <  1:278549/148‑1 (MQ=255)

                                                     tGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGt                                                                   <  1:351049/148‑1 (MQ=255)

                                                        aaacaaacCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTca                                                                <  1:113771/148‑1 (MQ=255)

                                                        aaacaaacCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTca                                                                <  1:220334/148‑1 (MQ=255)

                                                            aaacCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAat                                                            <  2:229984/148‑1 (MQ=255)

                                                                       aaTTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTa                                                 <  1:35637/148‑1 (MQ=255)

                                                                       aaTTGTAAAAAGCCGCGATTACGACTGAAATAAGTACGGTGATTAGTATTTCAGATAGCTTTATACCTTTAGACATTTTTACATCTTCCTAATATTAAAACGCACAACCAGCCATAGGAAAGTTATGCGTTCAGAATCTATATGAGTa                                                 <  2:51492/148‑1 (MQ=255)

                                                                               aTAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACatat                                         >  1:68686/1‑148 (MQ=255)

                                                                                   cTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTGTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGtat                                     <  2:45533/148‑1 (MQ=255)

                                                                                    tGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGtata                                    <  1:218952/148‑1 (MQ=255)

                                                                                    tGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGtata                                    >  2:84007/1‑148 (MQ=255)

                                                                                     gCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGTATAg                                   <  1:325391/148‑1 (MQ=255)

                                                                                                            ggTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGTATAGTAACACTTTCCTACGCTAGTTCa            <  2:224247/148‑1 (MQ=255)

                                                                                                            ggTTACTAGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGTATAGTAACACTTTCCTACGCTAGTTCa            <  2:181000/148‑1 (MQ=255)

                                                                                                                   aGTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGTATAGTAACACTTTCCTACGCTAGTTCAAGCTAGa     <  1:210637/148‑1 (MQ=255)

                                                                                                                    gTATTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGTATAGTAACACTTTCCTACGCTAGTTCAAGCTAGAt    >  2:320735/1‑148 (MQ=255)

                                                                                                                      aTTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGTATAGTAACACTTTCCTACGCTAGTTCAAGCTAGATCa  >  2:52721/1‑148 (MQ=255)

                                                                                                                      aTTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGTATAGTAACACTTTCCTACGCTAGTTCAAGCTAGATCa  >  2:298326/1‑148 (MQ=255)

                                                                                                                      aTTTCAGATAGCTTTATACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGTATAGTAACACTTTCCTACGCTAGTTCAAGCTAGATCa  >  2:109113/1‑148 (MQ=255)

CCAAACCCCGTTTGTTAATTGTTCGAGGTGAAGGCCTGTAGCTTGCACACCATTGTAAACAAACCACCATAAATTGTAAATAACTGCGAATACTACTGAAATAAGTACGGTTACTAGTATTTCAGATAGCTTTAAACCTTTTGACATTTTTACATCCTCCTAATAAAAAAACGCACAACCATCCATAGGAAAGTTATGCGTTCACAATATATATTAGTAAAACATATGTATAGTAACACTTTCCTACGCTAGTTCAAGCTAGATCA  >  CP000730/1087536‑1087801

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