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
A9 F1 I2 R1	760	52.7	2744488	90.2%	2475528	105.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,361,329	G→A	G52S (GGC→AGC)	gltF →	periplasmic protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,361,329	0	G	A	100.0%	203.2 / NA	62	G52S (GGC→AGC)	gltF	periplasmic protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (34/28); total (34/28)

CAGCTGCTATTTGTGCAGCACTTTCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCGGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGCACAGCACCAACGCTAATTGCTG  >  NC_000913/3361201‑3361458

caGCTGCTATTTGTGCAGCACTTTCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGa                                                                                                                         <  2:961000/139‑1 (MQ=255)

caGCTGCTATTTGTGCAGCACTTTCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGa                                                                                                                         >  2:594757/1‑139 (MQ=255)

   ctgctATTTGTGCAGCACTTTCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTa                                                                                                                      >  2:603937/1‑139 (MQ=255)

    tgctATTTGTGCAGCACTTTCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTAt                                                                                                                     >  1:649378/1‑139 (MQ=255)

        aTTTGTGCAGCACTTTCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGa                                                                                                                 <  2:649378/139‑1 (MQ=255)

        aTTTGTGCAGCACTTTCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGa                                                                                                                 <  1:1156052/139‑1 (MQ=255)

        aTTTGTGCAGCACTTTCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGa                                                                                                                 <  1:1211438/139‑1 (MQ=255)

        aTTTGTGCAGCACTTTCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGa                                                                                                                 <  1:232918/139‑1 (MQ=255)

          ttGTGCAGCACTTTCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGaaa                                                                                                               <  1:389463/139‑1 (MQ=255)

                     tttCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGa                                                                                                                 <  1:1169304/126‑1 (MQ=255)

                     tttCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGa                                                                                                                 >  2:1169304/1‑126 (MQ=255)

                              cagcaTTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGaa                                                                                           >  2:1370192/1‑139 (MQ=255)

                                   ttCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGa                                                                                                                 >  1:1319446/1‑112 (MQ=255)

                                   ttCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGa                                                                                                                 <  2:1319446/112‑1 (MQ=255)

                                             tGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAg                                                                            >  1:1129494/1‑139 (MQ=255)

                                             tGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAg                                                                            >  1:635536/1‑139 (MQ=255)

                                             tGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAg                                                                            >  1:215853/1‑139 (MQ=255)

                                             tGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAg                                                                            >  2:293104/1‑139 (MQ=255)

                                                  aCAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGaaa                                                                                                               >  2:1270142/1‑99 (MQ=255)

                                                  aCAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGaaa                                                                                                               <  1:1270142/99‑1 (MQ=255)

                                                    aGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATaaa                                                                     <  2:215853/139‑1 (MQ=255)

                                                                tACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAAc                                                                                                      <  1:390393/94‑1 (MQ=255)

                                                                tACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAAc                                                                                                      >  2:390393/1‑94 (MQ=255)

                                                                tACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTaa                                                                               >  2:1316945/1‑117 (MQ=255)

                                                                tACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTaa                                                                               <  1:1316945/117‑1 (MQ=255)

                                                                tACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTg                                                         >  2:953338/1‑139 (MQ=255)

                                                                       ttAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTgg                                                                 >  2:16459/1‑124 (MQ=255)

                                                                       ttAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTgg                                                                 <  1:16459/124‑1 (MQ=255)

                                                                          aCTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCaaca                                               >  2:509332/1‑137 (MQ=255)

                                                                            tATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCAttgtt                                                                                                                           <  1:316766/61‑1 (MQ=255)

                                                                            tATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCAttgtt                                                                                                                           >  2:316766/1‑61 (MQ=255)

                                                                               catcGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGaaa                                                                                                               <  2:328431/70‑1 (MQ=255)

                                                                               catcGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGaaa                                                                                                               >  1:328431/1‑70 (MQ=255)

                                                                               catcGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGaaa                                                                                                               >  2:1356299/1‑70 (MQ=255)

                                                                               catcGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGaaa                                                                                                               <  1:1356299/70‑1 (MQ=255)

                                                                               catcGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATaaa                                                                     >  2:475813/1‑112 (MQ=255)

                                                                               catcGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATaaa                                                                     <  1:475813/112‑1 (MQ=255)

                                                                               catcGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGc                                          >  2:1205001/1‑139 (MQ=255)

                                                                                             ccccTGGTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAAc                            <  2:635536/139‑1 (MQ=255)

                                                                                                  ggTGCGTGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGca                       >  1:937827/1‑139 (MQ=255)

                                                                                                  ggTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGca                       >  1:1109360/1‑139 (MQ=255)

                                                                                                   gTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGa                                                                                                                 <  1:1207709/48‑1 (MQ=255)

                                                                                                   gTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGa                                                                                                                 >  2:1207709/1‑48 (MQ=255)

                                                                                                   gTGCATGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGcac                      <  2:1129494/139‑1 (MQ=255)

                                                                                                        tGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGa                                                                                                                 >  2:175454/1‑43 (MQ=255)

                                                                                                        tGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGa                                                                                                                 <  1:175454/43‑1 (MQ=255)

                                                                                                        tGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACAt                                      >  2:776577/1‑118 (MQ=255)

                                                                                                        tGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACAt                                      <  1:776577/118‑1 (MQ=255)

                                                                                                        tGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGCACAGCAc                 >  2:75529/1‑139 (MQ=255)

                                                                                                        tGTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGCACAGCAc                 >  2:574298/1‑139 (MQ=255)

                                                                                                         gTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGt                                                                                 <  2:1134545/74‑1 (MQ=255)

                                                                                                         gTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGt                                                                                 >  1:1134545/1‑74 (MQ=255)

                                                                                                         gTACCCCAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGCACAGCAcc                <  1:953338/139‑1 (MQ=255)

                                                                                                              ccAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGCACAGCACCAACGc           >  2:1135075/1‑139 (MQ=255)

                                                                                                               cAGTTGTTACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGCACAGCACCAACGCt          <  1:1370192/139‑1 (MQ=255)

                                                                                                                 gttgttACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGCACAGCACCAACGCTaa        <  2:1109360/139‑1 (MQ=255)

                                                                                                                   tgttACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGCACAGCACCAACGCTAAtt      >  2:84834/1‑139 (MQ=255)

                                                                                                                    gttACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTgcg                                                                                                >  1:991993/1‑48 (MQ=255)

                                                                                                                    gttACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTgcg                                                                                                <  2:991993/48‑1 (MQ=255)

                                                                                                                     ttACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGtaataa                                                                      >  2:113326/1‑73 (MQ=255)

                                                                                                                     ttACGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGtaataa                                                                      <  1:113326/73‑1 (MQ=255)

                                                                                                                       aCGGGCGGCAGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGCACAGCACCAACGCTAATTGCTg  >  2:56609/1‑139 (MQ=255)

                                                                                                                            cggcagcATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTaa                                                                               >  2:625890/1‑57 (MQ=255)

                                                                                                                            cggcagcATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTaa                                                                               <  1:625890/57‑1 (MQ=255)

CAGCTGCTATTTGTGCAGCACTTTCTGTTGCAGCATTCAGTGCCATGGCAACAGATTCAACTGATACAGAATTAACTATCATCGGCGAGTATACCCCTGGTGCATGTACCCCAGTTGTTACGGGCGGCGGCATTGTTGACTATGGGAAACATCATAACAGTGCGCTGAATCCGACCGGTAAAAGTAATAAACTGGTTCAACTGGGCCGCAAAAACAGCACATTAAATATAACCTGCACAGCACCAACGCTAATTGCTG  >  NC_000913/3361201‑3361458

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A