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
A2 F1 I2 R1	764	42.0	2018750	95.5%	1927906	109.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,431,882	T→C	V945A (GTG→GCG)	stfR →	Rac prophage, putative tail fiber protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,431,882	0	T	C	100.0%	106.2 / NA	31	V945A (GTG→GCG)	stfR	Rac prophage, putative tail fiber protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/17); total (14/17)

CCACCAGAAAGCTACCCAGTCGGCGCACCAATCCCGTGGCCATCAGATACCGTTCCGTCT‑GGTTATGCCCTGATGCAGGGGCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGTGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGCATTAAATCGCATACCCACAGCGCCAGCGCATCCAGTACAGATTTGGGGACGAA  >  NC_000913/1431746‑1432014

ccaccaGAAAGCTACCCAGTCGGCGCACCAATCCCGTGGCCATCAGATACCGTTCCGTCT‑GGTTATGCCCTGATGCAGGGGCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGa                                                                                                                                    <  2:271155/139‑1 (MQ=255)

    caGAAAGCTACCCAGTCGGCGCACCAATCCCGTGGCCATCAGATACCGTTCCGTCTGGGTTATGCCCTGATGCAGGGGCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATcc                                                                                                                                 <  2:136594/139‑1 (MQ=255)

                                 ccGTGGCCATCAGATACCGTTCCGTCT‑GGTTATGCCCTGATGCAGGGGCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCa                                                                                                   <  2:842088/139‑1 (MQ=255)

                                    tGGCCATCAGATACCGTTCCGTCT‑GGTTATGCCCTGATGCAGGGGCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCaaa                                                                                                 <  2:855873/138‑1 (MQ=255)

                                    tGGCCATCAGATACCGTTCCGTCT‑GGTTATGCCCTGATGCAGGGGCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCaaa                                                                                                 >  1:855873/1‑138 (MQ=255)

                                                aCCGTTCCGTCT‑GGTTATGCCCTGATGCAGGGGCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTc                                                                                    >  1:910479/1‑139 (MQ=255)

                                                     tCCGTCT‑GGTTATGCCCTGATGCAGGGGCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATg                                                                                                                         >  1:603632/1‑97 (MQ=255)

                                                     tCCGTCT‑GGTTATGCCCTGATGCAGGGGCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATg                                                                                                                         <  2:603632/97‑1 (MQ=255)

                                                        gTCT‑GGTTATGCCCTGATGCAGGGGCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTa                                                                            >  1:781999/1‑139 (MQ=255)

                                                                          tGCAGGGGCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGa                                                           <  2:705117/139‑1 (MQ=255)

                                                                              ggggCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCAGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGc                                                       >  2:660676/1‑139 (MQ=255)

                                                                               gggCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGt                                                                             >  1:350529/1‑116 (MQ=255)

                                                                               gggCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGt                                                                             <  2:350529/116‑1 (MQ=255)

                                                                               gggCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGCa                                                      >  1:472721/1‑139 (MQ=255)

                                                                                 gCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGCAtt                                                    <  2:910479/139‑1 (MQ=255)

                                                                                     gCTTTTGACAAATCTGCTTCCCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGATGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGCATTAAAt                                                <  1:660676/139‑1 (MQ=255)

                                                                                     gCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGCATTAAAt                                                >  2:77072/1‑139 (MQ=255)

                                                                                         ttGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGa                                                                                                               >  2:425259/1‑72 (MQ=255)

                                                                                         ttGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGa                                                                                                               <  1:425259/72‑1 (MQ=255)

                                                                                                aTCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGCATTAAATCGCATACCcac                                     >  1:916146/1‑139 (MQ=255)

                                                                                                    gCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGCATTAAATCGCATACCCAcagcg                                 <  2:20539/139‑1 (MQ=255)

                                                                                                      ttACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGtctc                                                                     >  1:805923/1‑101 (MQ=255)

                                                                                                      ttACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGtctc                                                                     <  2:805923/101‑1 (MQ=255)

                                                                                                            gAAACTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGCATTAAATCGCATACCCACAGCGCCAGCGCa                         <  1:730449/139‑1 (MQ=255)

                                                                                                              aaCTTGCAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGCATTAAATCGCATACCCACAGCGCCAGCGCATc                       <  2:472721/139‑1 (MQ=255)

                                                                                                                    cAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGa                                                           >  2:629322/1‑97 (MQ=255)

                                                                                                                    cAGCCGCTTATCCGTCAGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGa                                                           <  1:629322/97‑1 (MQ=255)

                                                                                                                                 gTCAGGCGCGATCCCTGATATGCGTAGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGCATTTAATCGCATACCCACAGCGCCAGCGCATCCAGTACAGATTTGGGGACg    >  2:602233/1‑139 (MQ=255)

                                                                                                                                   cAGGCGCGATCCTTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGCATTAAATCGCATACCCACAGCGCCAGCGCATCCAGTACAGATTTGGGGACGaa  <  1:602233/139‑1 (MQ=255)

                                                                                                                                    aGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTa                                                                            >  2:306138/1‑64 (MQ=255)

                                                                                                                                    aGGCGCGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTa                                                                            <  1:306138/64‑1 (MQ=255)

CCACCAGAAAGCTACCCAGTCGGCGCACCAATCCCGTGGCCATCAGATACCGTTCCGTCT‑GGTTATGCCCTGATGCAGGGGCAGGCTTTTGACAAATCTGCTTACCCGAAACTTGCAGCCGCTTATCCGTCAGGCGTGATCCCTGATATGCGTGGCTGGACGATTAAGGGCAAACCTGCCAGTGGTCGGGCCGTATTGTCTCAGGAACAGGACGGCATTAAATCGCATACCCACAGCGCCAGCGCATCCAGTACAGATTTGGGGACGAA  >  NC_000913/1431746‑1432014

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A