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
A11 F28 I1 R1	161	75.5	2581324	99.3%	2563254	138.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,334,451	A→G	T248A (ACA→GCA)	ispB →	all‑trans‑octaprenyl‑diphosphate synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,334,451	0	A	G	100.0%	176.6 / NA	49	T248A (ACA→GCA)	ispB	all‑trans‑octaprenyl‑diphosphate synthase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (22/27); total (22/27)

ATCTCGGCACTGCTTTCCAGTTGATCGACGATTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCACACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTGGATCTCTTGAATGGACGCGTCAGCGTGCCGAGGAAGA  >  NC_000913/3334314‑3334581

aTCTCGGCACTGCTTTCCAGTTGATCGACGATTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGcgca                                                                                                                                  >  2:730496/1‑140 (MQ=255)

aTCTCGGCACTGCTTTCCAGTTGATCGACGATTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGcgca                                                                                                                                  >  2:1005396/1‑140 (MQ=255)

 tctcGGCACTGCTTTCCAGTTGATCGACGATTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCgcac                                                                                                                                 <  1:600999/140‑1 (MQ=255)

  ctcGGCACTGCTTTCCAGTTGATCGACGATTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCAcc                                                                                                                                <  1:713445/140‑1 (MQ=255)

         cTGCTTTCCAGTTGATCGACGATTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAg                                                                                                                         >  2:102580/1‑140 (MQ=255)

            cTTTCCAGTTGATCGACGATTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGTGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGca                                                                                                                      >  2:605940/1‑140 (MQ=255)

             tttCCAGTTGATCGACGATTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGcac                                                                                                                     <  2:59353/140‑1 (MQ=255)

                      gATCGACGATTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAgatg                                                                                                                >  2:98475/1‑136 (MQ=255)

                      gATCGACGATTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAgatg                                                                                                                <  1:98475/136‑1 (MQ=255)

                      gATCGACGATTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATcc                                                                                                            >  2:158236/1‑140 (MQ=255)

                         cgacgaTTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTa                                                                                                         >  2:471902/1‑140 (MQ=255)

                            cgaTTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAga                                                                                                                  >  1:264348/1‑128 (MQ=255)

                            cgaTTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAga                                                                                                                  <  2:264348/128‑1 (MQ=255)

                              aTTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGcc                                                                                                    >  2:1205803/1‑140 (MQ=255)

                               tttACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCa                                                                                                   <  1:1236440/140‑1 (MQ=255)

                                ttACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCAt                                                                                                  <  2:1223257/140‑1 (MQ=255)

                                  aCTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCg                                                                                                <  1:158236/140‑1 (MQ=255)

                                    tCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGaa                                                                                              <  2:1154386/140‑1 (MQ=255)

                                    tCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGaa                                                                                              <  1:1205803/140‑1 (MQ=255)

                                    tCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGaa                                                                                              <  1:541998/140‑1 (MQ=255)

                                    tCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGaa                                                                                              <  1:730496/140‑1 (MQ=255)

                                    tCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGaa                                                                                              <  1:922183/140‑1 (MQ=255)

                                            aaTGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTaa                                                                                      <  1:274194/140‑1 (MQ=255)

                                              tGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACg                                                                                    >  2:1255816/1‑140 (MQ=255)

                                                  gATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCg                                                                                <  1:144020/140‑1 (MQ=255)

                                                    tGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGcc                                                                              >  2:783505/1‑140 (MQ=255)

                                                     ggCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCa                                                                             >  2:249167/1‑140 (MQ=255)

                                                     ggCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCa                                                                             >  1:1134609/1‑140 (MQ=255)

                                                     ggCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCa                                                                             >  1:16043/1‑140 (MQ=255)

                                                     ggCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCa                                                                             >  2:1070859/1‑140 (MQ=255)

                                                     ggCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATCCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCa                                                                             <  2:1134609/140‑1 (MQ=255)

                                                          aCAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCAtcttc                                                                        >  2:1000494/1‑140 (MQ=255)

                                                              ttAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATTGAACAGGGTAACGGTCGCCATCTTCTGGa                                                                    <  1:102580/140‑1 (MQ=255)

                                                                aGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAAc                                                                  <  1:471902/140‑1 (MQ=255)

                                                                  gTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCg                                                                <  1:1000494/140‑1 (MQ=255)

                                                                      aaaTGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTc                                                            >  2:278754/1‑140 (MQ=255)

                                                                        aTGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTg                                                          >  2:918476/1‑140 (MQ=255)

                                                                            cGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAg                                                      >  2:1272329/1‑140 (MQ=255)

                                                                            cGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAg                                                      >  2:437404/1‑140 (MQ=255)

                                                                            cGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAg                                                      >  2:106992/1‑140 (MQ=255)

                                                                                   gaTCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGaa                                               <  1:1272329/140‑1 (MQ=255)

                                                                                    aTCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAAc                                              <  1:918476/140‑1 (MQ=255)

                                                                                            gAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTgg                                      <  1:1005396/140‑1 (MQ=255)

                                                                                             aaGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTGGa                                     <  1:437404/140‑1 (MQ=255)

                                                                                             aaGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTGGa                                     <  1:106992/140‑1 (MQ=255)

                                                                                               ggTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTGGAtc                                   >  2:238937/1‑140 (MQ=255)

                                                                                                        aCGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTGGATCTCTTGAATg                          >  2:1111328/1‑140 (MQ=255)

                                                                                                        aCGCTGCCGCTGCTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTGGATCTCTTGAATg                          >  2:1288704/1‑140 (MQ=255)

                                                                                                          gctgccgctgcTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTGGATCTCTTGAATGGa                        <  2:32128/140‑1 (MQ=255)

                                                                                                          gctgccgctgcTGCATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTGGATCTCTTGAATGGa                        <  1:718036/140‑1 (MQ=255)

                                                                                                                   gctgcATGCGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTGGATCTCTTGAATGGACGCGTCAGc               <  1:1288704/140‑1 (MQ=255)

                                                                                                                           cGATGCATCATGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTGGATCTCTTGAATGGACGCGTCAGCGTGCCGAg       >  2:1183366/1‑140 (MQ=255)

                                                                                                                                catcatGGCGCACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTGGATCTCTTGAATGGACGCGTCAGCGTGCCGAGgaaga  <  1:249167/140‑1 (MQ=255)

ATCTCGGCACTGCTTTCCAGTTGATCGACGATTTACTCGATTACAATGCCGATGGCGAACAGTTAGGTAAAAATGTCGGCGACGATCTGAACGAAGGTAAACCGACGCTGCCGCTGCTGCATGCGATGCATCATGGCACACCAGAACAGGCACAGATGATCCGTACCGCCATCGAACAGGGTAACGGTCGCCATCTTCTGGAACCGGTTCTGGAAGCAATGAACGCTTGTGGATCTCTTGAATGGACGCGTCAGCGTGCCGAGGAAGA  >  NC_000913/3334314‑3334581

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