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
A8 F28 I1 R1	145	97.8	3401598	99.2%	3374385	138.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,125,627	T→C	A40A (GCA→GCG)	wcaI ←	putative colanic biosynthesis glycosyl transferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,125,627	0	T	C	97.9%	163.8 / ‑4.6	48	A40A (GCA→GCG)	wcaI	putative colanic biosynthesis glycosyl transferase
Reads supporting (aligned to +/- strand): ref base T (1/0); new base C (21/26); total (22/26)
Fisher's exact test for biased strand distribution p-value = 4.58e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01

ACAGGCGTTTCAGGGTGCTCGGCTGTTTTGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGTGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTAATGCCGTAGACCAGTATTTTCATAATCCGGGTAC  >  NC_000913/2125494‑2125757

aCAGGCGTTTCAGGGTGCTCGGCTGTTTTGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTa                                                                                                                              <  2:902489/140‑1 (MQ=255)

  aGGCGTTTCAGGGTGCTCGGCTGTTTTGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGTGCGGTAAt                                                                                                                            >  2:718601/1‑140 (MQ=255)

    gCGTTTCAGGGTGCTCGGCTGTTTTGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGa                                                                                                                          >  1:665696/1‑140 (MQ=255)

     cGTTTCAGGGTGCTCGGCTGTTTTGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGgcggcgcg                                                                                                                                 >  1:1468858/1‑132 (MQ=255)

     cGTTTCAGGGTGCTCGGCTGTTTTGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGgcggcgcg                                                                                                                                 <  2:1468858/132‑1 (MQ=255)

     cGTTTCAGGGTGCTCGGCTGTTTTGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGAc                                                                                                                         >  1:910136/1‑140 (MQ=255)

         tCAGGGTGCTCGGCTGTTTTGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGc                                                                                                                     <  2:1527013/140‑1 (MQ=255)

         tCAGGGTGCTCGGCTGTTTTGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGc                                                                                                                     <  2:469853/140‑1 (MQ=255)

                         ttttGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTtgtg                                                                                                     <  1:1505571/140‑1 (MQ=255)

                           ttGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCTCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTgcc                                                                                                   <  2:1422959/140‑1 (MQ=255)

                            tGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTgccg                                                                                                  <  2:163297/140‑1 (MQ=255)

                              gCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTgccgcc                                                                                                <  2:1050076/140‑1 (MQ=255)

                                 caTACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCgccagc                                                                                             <  1:727061/140‑1 (MQ=255)

                                 caTACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCgccagc                                                                                             <  2:147795/140‑1 (MQ=255)

                                 caTACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCgccagc                                                                                             <  2:227247/140‑1 (MQ=255)

                                                         tGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTAt                                                                     >  2:185603/1‑140 (MQ=255)

                                                         tGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTAt                                                                     >  1:843328/1‑140 (MQ=255)

                                                         tGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTAt                                                                     >  2:382703/1‑140 (MQ=255)

                                                           gcggcCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTAttt                                                                   >  1:573158/1‑140 (MQ=255)

                                                                ccccTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGa                                                              >  2:275413/1‑140 (MQ=255)

                                                                 cccTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGAt                                                             <  1:370337/140‑1 (MQ=255)

                                                                  ccTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATg                                                            <  2:665696/140‑1 (MQ=255)

                                                                        ctcGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGc                                                                 <  1:590400/129‑1 (MQ=255)

                                                                        ctcGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGc                                                                 >  2:590400/1‑129 (MQ=255)

                                                                               gTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCg                                               <  1:275413/140‑1 (MQ=255)

                                                                                tagagcCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCgg                                              >  2:367158/5‑140 (MQ=255)

                                                                                tAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATg                                                            >  1:554862/1‑126 (MQ=255)

                                                                                tAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATg                                                            >  1:915215/1‑126 (MQ=255)

                                                                                tAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATg                                                            <  2:554862/126‑1 (MQ=255)

                                                                                tAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATg                                                            <  2:915215/126‑1 (MQ=255)

                                                                                tAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCg                                                         >  1:452655/1‑129 (MQ=255)

                                                                                tAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCg                                                         <  2:1269791/129‑1 (MQ=255)

                                                                                tAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCg                                                         >  1:1269791/1‑129 (MQ=255)

                                                                                tAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCg                                                         <  2:452655/129‑1 (MQ=255)

                                                                                tAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCgg                                              >  2:1282724/1‑140 (MQ=255)

                                                                                   cgcCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGa                                           <  1:1282724/140‑1 (MQ=255)

                                                                                     ccAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGagt                                         >  1:316832/1‑140 (MQ=255)

                                                                                       aGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGagtag                                       >  1:439750/1‑140 (MQ=255)

                                                                                           ggAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTaa                                   <  2:129662/140‑1 (MQ=255)

                                                                                           ggAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTaa                                   <  1:367158/140‑1 (MQ=255)

                                                                                             aaTAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTAATg                                 >  1:175675/1‑140 (MQ=255)

                                                                                                aGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTAATGCCg                              <  2:439750/140‑1 (MQ=255)

                                                                                                       gCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTAATGCCGTAGACCa                       >  2:710337/1‑140 (MQ=255)

                                                                                                       gCCCACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTAATGCCGTAGACCa                       >  1:1351566/1‑140 (MQ=255)

                                                                                                         ccACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTAATGCCGTAGACCAGt                     <  2:316832/140‑1 (MQ=255)

                                                                                                          cACCTGCCATTGCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTAATGCCGTAGACCAGTa                    <  2:843328/140‑1 (MQ=255)

                                                                                                                     gCGGGTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTAATGCCGTAGACCAGTATTTTCATAATc         >  1:185241/1‑140 (MQ=255)

                                                                                                                        ggTAGTAAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTAATGCCGTAGACCAGTATTTTCATAATCCgg      <  1:710337/140‑1 (MQ=255)

                                                                                                                          tagtaAGGCGGCGCGGTAATGACCAGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTAATGCCGTAGACCAGTATTTTCATAATCCGGGt    >  2:591724/1‑140 (MQ=255)

                                                                                                                            gtaAGGCGGCGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTAATGCCGTAGACCAGTATTTTCATAATCCGGGTAc  <  1:167412/140‑1 (MQ=255)

ACAGGCGTTTCAGGGTGCTCGGCTGTTTTGGCACATACAGCGGGCAGCGCCACACCGTGGCGGCCCCCTCTTCTCGTTTGTAGCGCCAGGCGGAATAGTTCTCGCCCACCTGCCATTGCGGGTAGTAAGGCGGTGCGGTAATGACCCGCACCTCATGACCTTGTGCCGCCAGCCATTCCACCATCTCGCCGGTGTATTTGCCGATGCCGGTTAACTCCGGCGAGTAGTTAATGCCGTAGACCAGTATTTTCATAATCCGGGTAC  >  NC_000913/2125494‑2125757

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `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