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
A5 F1 I2 R1	77	34.8	1608548	95.0%	1528120	114.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,160,077	T→C	Y357C (TAC→TGC)	ygiQ ←	Radical SAM superfamily protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,160,077	0	T	C	100.0%	146.8 / NA	40	Y357C (TAC→TGC)	ygiQ	Radical SAM superfamily protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (19/21); total (19/21)

TGCGCCCTTCGTGCTCGGTGATAGAACAGAAAGAGCAGCCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGTATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCAATGCGCGGGCACAGCCTGGGTTGGTTTCGTGGTG  >  NC_000913/3159943‑3160204

tGCGCCCTTCGTGCTCGGTGATAGAACAGAAAGAGCAGCCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATgg                                                                                                                             <  2:448756/139‑1 (MQ=255)

tGCGCCCTTCGTGCTCGGTGATAGAACAGAAAGAGCAGCCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATgg                                                                                                                             >  2:527645/1‑139 (MQ=255)

               cGGTGATAGAACAGAAAGAGCAGCCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCt                                                                                                              <  2:64378/139‑1 (MQ=255)

                              aaGAGCAGCCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGt                                                                                               >  2:84944/1‑139 (MQ=255)

                               agagCAGCCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTa                                                                                              <  2:587902/139‑1 (MQ=255)

                                 agcagcCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACg                                                                                                                >  2:798444/1‑119 (MQ=255)

                                 agcagcCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACg                                                                                                                <  1:798444/119‑1 (MQ=255)

                                  gcagcCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGaa                                                                                           >  2:279959/1‑139 (MQ=255)

                                  gcagcCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGaa                                                                                           >  2:575255/1‑139 (MQ=255)

                                   cagcCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGaaa                                                                                          >  1:114131/1‑139 (MQ=255)

                                   cagcCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCCGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGaaa                                                                                          >  1:474323/1‑139 (MQ=255)

                                     gccgccAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGc                                                                                        >  1:55069/1‑139 (MQ=255)

                                        gccAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACg                                                                                                                >  2:550299/1‑112 (MQ=255)

                                        gccAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACg                                                                                                                <  1:550299/112‑1 (MQ=255)

                                                  ccACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCg                                                                           <  1:294988/139‑1 (MQ=255)

                                                    aCGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCggg                                                                         <  2:143453/139‑1 (MQ=255)

                                                    aCGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCggg                                                                         <  2:346379/139‑1 (MQ=255)

                                                      gCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAATCGGAATAGCAGGCGGGtt                                                                       <  1:445860/139‑1 (MQ=255)

                                                      gCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGtt                                                                       <  2:474323/139‑1 (MQ=255)

                                                      gCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGtt                                                                       <  2:114131/139‑1 (MQ=255)

                                                      gCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGtt                                                                       <  1:717773/139‑1 (MQ=255)

                                                        aTAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGa                                                                     <  2:55069/139‑1 (MQ=255)

                                                                gACCGAAAAACGGATCATTTCGTAAGCAGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCcacaca                                                             >  2:646063/1‑139 (MQ=255)

                                                                                          ccGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCaa                                   <  2:793240/139‑1 (MQ=255)

                                                                                              aaTACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCAATgcg                               <  2:780386/139‑1 (MQ=255)

                                                                                                   gggCATTGCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCAATGCGCGGGc                          <  1:646063/139‑1 (MQ=255)

                                                                                                          gCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGtt                                                                       >  2:456462/1‑87 (MQ=255)

                                                                                                          gCCATAGGCCGGATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGtt                                                                       <  1:456462/87‑1 (MQ=255)

                                                                                                                     gATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCggg                                                                         <  2:744488/74‑1 (MQ=255)

                                                                                                                     gATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCggg                                                                         >  1:744488/1‑74 (MQ=255)

                                                                                                                     gATGTGGCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCAATGCGCGGGCACAGCCTGGGTTGGTTTc        >  1:209664/1‑139 (MQ=255)

                                                                                                                          ggCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCAATGCGCGGGCACAGCCTGGGTTGGTTTCgtggt   >  2:386953/1‑139 (MQ=255)

                                                                                                                           gCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCAATGCGCGGGCACAGCCTGGGTTGGTTTCgtggtg  >  2:796978/1‑139 (MQ=255)

                                                                                                                           gCACGCGCTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCAATGCGCGGGCACAGCCTGGGTTGGTTTCgtggtg  >  1:212904/1‑139 (MQ=255)

                                                                                                                               gcgcTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCAATGCGCGGGCACAGCCTGGGTTGGTTTCgtggtg  >  2:465482/1‑135 (MQ=255)

                                                                                                                               gcgcTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCAATGCGCGGGCACAGCCTGGGTTAGTTTCgtgttg  <  1:465482/135‑1 (MQ=255)

                                                                                                                                cgcTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCgt                                                >  1:93432/1‑88 (MQ=255)

                                                                                                                                cgcTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCgt                                                <  2:93432/88‑1 (MQ=255)

                                                                                                                                cgcTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCAATgcg                               <  2:482670/105‑1 (MQ=255)

                                                                                                                                cgcTTGCATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCAATgcg                               >  1:482670/1‑105 (MQ=255)

TGCGCCCTTCGTGCTCGGTGATAGAACAGAAAGAGCAGCCGCCAAAGCAGCCACGCATAATGTTGACCGAAAAACGGATCATTTCGTAAGCCGGAATACGGGCATTGCCATAGGCCGGATGTGGCACGCGCTTGTATGGCAGCGCAAAAACGCTGTCCATCTCTTCGGTAGAAAGCGGAATAGCAGGCGGGTTGATCCACACATAGCGGTCGCCGTGTTTTTGCATCAATGCGCGGGCACAGCCTGGGTTGGTTTCGTGGTG  >  NC_000913/3159943‑3160204

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A