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
A1 F28 I1 R1	163	52.9	1786516	99.3%	1774010	139.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,791,033	T→C	Y71C (TAC→TGC)	ydiU ←	UPF0061 family protein YdiU

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,791,033	0	T	C	100.0%	111.6 / NA	32	Y71C (TAC→TGC)	ydiU	UPF0061 family protein YdiU
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (13/19); total (13/19)

GCGAATAAGGCGTCAGGCCAGCACCTTTCAGATGCCAGTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGTAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGCGACGATGGAATACTCAGCGTGTTAGCCAGTTCGGTATTATGCCAAATCAGCCGGGCAT  >  NC_000913/1790899‑1791165

gcgAATAAGGCGTCAGGCCAGCACCTTTCAGATGCCAGTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAAcc                                                                                                                                 <  2:266289/140‑1 (MQ=255)

        ggCGTCAGGCCAGCACCTTTCAGATGCCAGTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAg                                                                                                                         <  1:269323/140‑1 (MQ=255)

             cAGGCCAGCACCTTTCAGATGCCAGTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAgtggtg                                                                                                                    <  1:358101/140‑1 (MQ=255)

             cAGGCCAGCACCTTTCAGATGCCAGTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAgtggtg                                                                                                                    <  1:822464/140‑1 (MQ=255)

             cAGGCCAGCACCTTTCAGATGCCAGTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAgtggtg                                                                                                                    <  2:722220/140‑1 (MQ=255)

                          ttCAGATGCCAGTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCa                                                                                                            <  1:303445/135‑1 (MQ=255)

                          ttCAGATGCCAGTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCa                                                                                                            >  2:303445/1‑135 (MQ=255)

                          ttCAGATGCCAGTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAg                                                                                                       >  1:612049/1‑140 (MQ=255)

                          ttCAGATGCCAGTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAg                                                                                                       >  1:354022/1‑140 (MQ=255)

                            cAGATGCCAGTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTa                                                                                                     >  2:259482/1‑140 (MQ=255)

                                     gTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTcgc                                                                                            <  2:309855/140‑1 (MQ=255)

                                      tCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCa                                                                                                            <  2:36521/123‑1 (MQ=255)

                                      tCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCa                                                                                                            >  1:36521/1‑123 (MQ=255)

                                                tGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTcg                                                                                             <  1:392835/128‑1 (MQ=255)

                                                tGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTcg                                                                                             >  2:392835/1‑128 (MQ=255)

                                                tGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGaca                                                                                 >  2:297484/1‑140 (MQ=255)

                                                tGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAACGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGaca                                                                                 >  2:746726/1‑140 (MQ=255)

                                                    aTCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACGTg                                                                             >  2:78297/1‑140 (MQ=255)

                                                     tCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACTCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTgc                                                                            >  1:51748/1‑140 (MQ=255)

                                                       agcaagcaGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTgcgc                                                                          <  2:23749/140‑1 (MQ=255)

                                                                       ccGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGcga                                                          <  2:354022/140‑1 (MQ=255)

                                                                         gAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGcgacg                                                        <  1:297484/140‑1 (MQ=255)

                                                                         gAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGcgacg                                                        <  1:259482/140‑1 (MQ=255)

                                                                          aGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGcgacga                                                       >  2:179649/1‑140 (MQ=255)

                                                                              aaaTGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGCGACGATGGa                                                   <  2:20156/140‑1 (MQ=255)

                                                                               aaTGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGCGACGATGGaa                                                  <  2:552683/140‑1 (MQ=255)

                                                                                     gcgcCCATCCCCCAGTTGGCCCGCCCAGACGCCGAACTGATGACTACTGCCTACCTCGCCCAGGGCAGATATACCACGCAGTAGGGCTTCCCCGCCCCCCACCCCTGCTCCTCCTCTAAACCGCGAACACGGAATACTCa                                            <  2:781528/140‑1 (MQ=255)

                                                                                                     tGGCCCGCCCAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGCGACGATGGAATACTCAGCGTGTTAGCCAGTTc                            <  1:860724/140‑1 (MQ=255)

                                                                                                       gcccgcccAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGCGACGATGGAATACTCAGCGTGTTAGCCAGTTCgg                          >  2:22338/1‑140 (MQ=255)

                                                                                                          cgcccAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGCGACGATGGAATACTCAGCGTGTTAGCCAGTTCGGtat                       >  2:161050/1‑140 (MQ=255)

                                                                                                          cgcccAGACGCCGAACTGATGACCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGCGACGATGGAATACTCAGCGTGTTAGCCAGTTCGGtat                       <  1:90260/140‑1 (MQ=255)

                                                                                                                           gatgaCCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGCGACGATGGAATACTCAGCGTGTTAGCCAGTTCGGTATTATGCCAAATCAGCCgg      >  1:685718/1‑140 (MQ=255)

                                                                                                                            atgaCCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGCGACGATGGAATACTCAGCGTGTTAGCCAGTTCGGTATTATGCCAAATCAGCCggg     <  2:751151/140‑1 (MQ=255)

                                                                                                                               aCCACTGCAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACGTGCGCCATTTTTAAACAGCGACGATGGAATACTCAGCGTGTTAGCCAGTTCGGTATTATGCCAAATCAGCCGGGCat  <  1:78297/140‑1 (MQ=255)

GCGAATAAGGCGTCAGGCCAGCACCTTTCAGATGCCAGTCCATTGTAGTGCCATCAGCAAGCAGTTGTTCGCCGAGTAAAATGCCGCGCCCATCACCCAGTTGGCCCGCCCAGACGCCGAACTGATGACCACTGTAAACCTGCGCCAGTGGTGACATACCAGGCAGTAGGGCTTCGCCGCCCCAGACACCTGCGCCATTTTTAAACAGCGACGATGGAATACTCAGCGTGTTAGCCAGTTCGGTATTATGCCAAATCAGCCGGGCAT  >  NC_000913/1790899‑1791165

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A