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
A4 F1 I2 R1	780	68.3	3343050	93.5%	3125751	102.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,380,807	G→A	220 (TAG→TAA)	ycjU →	beta‑phosphoglucomutase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,380,807	0	G	A	100.0%	175.4 / NA	55	220 (TAG→TAA)	ycjU	beta‑phosphoglucomutase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (27/28); total (27/28)

GCCATTAACGCCAGCGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAGCAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGG  >  NC_000913/1380682‑1380939

gCCATTAACGCCAGCGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGTGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAAc                                                                                                                         <  2:1427906/139‑1 (MQ=255)

             gCGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCttt                                                                                                            <  2:1098162/139‑1 (MQ=255)

              cGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTc                                                                                                           >  2:1256322/1‑139 (MQ=255)

              cGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTc                                                                                                           >  2:1665283/1‑139 (MQ=255)

                   tGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAAc                                                                                                                         >  1:1349424/1‑120 (MQ=255)

                   tGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAAc                                                                                                                         <  2:1349424/120‑1 (MQ=255)

                              gggATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCaa                                                                                           <  1:1665283/139‑1 (MQ=255)

                                   cGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAAt                                                                                      <  1:440421/139‑1 (MQ=255)

                                    ggCGCGGGTTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATc                                                                                     >  1:976838/1‑139 (MQ=255)

                                         gggCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGa                                                                                >  1:60400/1‑139 (MQ=255)

                                          ggCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGAt                                                                               >  2:431644/1‑139 (MQ=255)

                                             ttAACCGGGGCGCAATTACTGTTGCCTGCAACGGAATCACTCACCTGGCCGCGGGTATCGGCCTTCTGTCAAAACGTATAAAAAAGGAATCAACATGGCGCAGCTTTCGTTACAACAGATTCAAAAAATCTACGATAAc                                                                            <  1:800072/139‑1 (MQ=255)

                                                     ggCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGa                                                                                                                               >  1:170704/1‑80 (MQ=255)

                                                     ggCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGa                                                                                                                               <  2:170704/80‑1 (MQ=255)

                                                     ggCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCt                                                                                                                   <  2:896322/92‑1 (MQ=255)

                                                     ggCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCt                                                                                                                   >  1:896322/1‑92 (MQ=255)

                                                     ggCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCa                                                                    <  2:60400/139‑1 (MQ=255)

                                                              aCTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGaa                                                           <  1:431644/139‑1 (MQ=255)

                                                                  ttGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAAc                                                                                                                         >  2:503155/1‑73 (MQ=255)

                                                                  ttGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAAc                                                                                                                         <  1:503155/73‑1 (MQ=255)

                                                                  ttGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTAGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACg                                                                                 <  2:301917/113‑1 (MQ=255)

                                                                  ttGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTAGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACg                                                                                 >  1:301917/1‑113 (MQ=255)

                                                                    gCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGc                                                                     >  2:1288665/1‑123 (MQ=255)

                                                                    gCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGc                                                                     <  1:1288665/123‑1 (MQ=255)

                                                                    gCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACtt                                                     >  2:871854/1‑139 (MQ=255)

                                                                       ttCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCaa                                                  >  2:183554/1‑139 (MQ=255)

                                                                               aaTCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCa                                                                          >  1:661401/1‑107 (MQ=255)

                                                                               aaTCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCa                                                                          <  2:661401/107‑1 (MQ=255)

                                                                               aaTCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACt                                                      >  2:17913/1‑127 (MQ=255)

                                                                               aaTCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACt                                                      <  1:17913/127‑1 (MQ=255)

                                                                                  cactcacCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTg                                       <  2:976838/139‑1 (MQ=255)

                                                                                    ctcacCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGcc                                     >  2:583810/1‑139 (MQ=255)

                                                                                    ctcacCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAAC‑AAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCaaa                                                                                          <  2:926466/85‑1 (MQ=255)

                                                                                    ctcacCTGGCCGCGGTTAGCGGCCTTCTGGCAAAACGTATAAC‑AAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCaaa                                                                                          >  1:926466/1‑85 (MQ=255)

                                                                                     tcacCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCg                                    <  1:1256322/139‑1 (MQ=255)

                                                                                       acCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCt                                                                                                              >  2:1122982/1‑63 (MQ=255)

                                                                                       acCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCt                                                                                                              <  1:1122982/63‑1 (MQ=255)

                                                                                         cTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCt                                                                                                                   >  1:198889/1‑56 (MQ=255)

                                                                                         cTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCt                                                                                                                   <  2:198889/56‑1 (MQ=255)

                                                                                         cTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCt                                                                                                              >  1:943814/1‑61 (MQ=255)

                                                                                         cTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCt                                                                                                              <  2:943814/61‑1 (MQ=255)

                                                                                            gCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAAt                                                                                      >  1:1460373/1‑82 (MQ=255)

                                                                                            gCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAAt                                                                                      <  2:1460373/82‑1 (MQ=255)

                                                                                            gCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAAc                                                                            >  1:148064/1‑92 (MQ=255)

                                                                                            gCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAAc                                                                            <  2:148064/92‑1 (MQ=255)

                                                                                               gcgGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAAGAGtt                          >  1:176429/1‑139 (MQ=255)

                                                                                                          ccTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTg               <  1:183554/139‑1 (MQ=255)

                                                                                                           cTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATaa                                                                             >  2:297163/1‑76 (MQ=255)

                                                                                                           cTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATaa                                                                             <  1:297163/76‑1 (MQ=255)

                                                                                                            ttCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCttt                                                                                                            <  2:270763/44‑1 (MQ=255)

                                                                                                            ttCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCttt                                                                                                            >  1:270763/1‑44 (MQ=255)

                                                                                                             tCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCg            <  2:176429/139‑1 (MQ=255)

                                                                                                                 gCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGccc        >  2:527212/1‑139 (MQ=255)

                                                                                                                       cGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCggg  >  1:321502/1‑139 (MQ=255)

                                                                                                                       cGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCgga  <  1:583810/139‑2 (MQ=255)

GCCATTAACGCCAGCGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAGCAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGG  >  NC_000913/1380682‑1380939

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