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 F1 I2 R1	760	67.6	3323148	92.7%	3080558	109.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,467,921	C→T	302 (TAG→TAA)	insD1 ←	IS2 transposase TnpB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,467,921	0	C	T	100.0%	174.9 / NA	55	302 (TAG→TAA)	insD1	IS2 transposase TnpB
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (25/30); total (25/30)

GAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTC  >  NC_000913/1467786‑1468043

gaATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTtat                                                                                                                          <  1:1598811/139‑1 (MQ=255)

           ggggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTta                                                                                                                           <  1:1475259/127‑1 (MQ=255)

           ggggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTta                                                                                                                           >  2:1475259/1‑127 (MQ=255)

           ggggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACa                                                                                                               <  2:488343/139‑1 (MQ=255)

           ggggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACa                                                                                                               >  1:50171/1‑139 (MQ=255)

            gggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACAt                                                                                                              <  1:866323/139‑1 (MQ=255)

             ggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATc                                                                                                             >  1:931434/1‑139 (MQ=255)

                       ggTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                                   <  2:776434/139‑1 (MQ=255)

                          tATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTaa                                                                                                <  2:560600/139‑1 (MQ=255)

                           aTTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTtat                                                                                                                          <  2:1005390/112‑1 (MQ=255)

                           aTTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAc                                                                                               >  2:89083/1‑139 (MQ=255)

                           aTTCGGGTACAGGACAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTATTGAACATCATGGGACAAGAACCCTGCATTTGCCCTtat                                                                                                                          >  1:1005390/1‑112 (MQ=255)

                            ttCGGGTATAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                              <  1:1380171/139‑1 (MQ=255)

                            ttCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                              <  1:590450/139‑1 (MQ=255)

                                 gTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACAt                                                                                                              >  2:314925/1‑118 (MQ=255)

                                 gTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACAt                                                                                                              <  1:314925/118‑1 (MQ=255)

                                  tACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTAc                                                                                        >  1:515483/1‑139 (MQ=255)

                                       gATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTaa                                                                                                <  2:718944/126‑1 (MQ=255)

                                       gATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTaa                                                                                                >  1:718944/1‑126 (MQ=255)

                                           aaGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATATCCAGACATCTGTTATCACt                                                                                                   >  2:1041128/1‑119 (MQ=255)

                                           aaGCTTTGCTGGAAATCGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                                   <  1:1041128/119‑1 (MQ=255)

                                                 tGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCa                                                                                                                   <  1:591404/97‑1 (MQ=255)

                                                 tGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCa                                                                                                                   >  2:591404/1‑97 (MQ=255)

                                                 tGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                              <  1:768752/118‑1 (MQ=255)

                                                 tGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                              >  2:768752/1‑118 (MQ=255)

                                                 tGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCa                                                                         >  2:417904/1‑139 (MQ=255)

                                                           tGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCg                                                              <  2:50171/139‑1 (MQ=255)

                                                                     gctacgctaACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGgcgagcga                                                    <  1:417904/139‑1 (MQ=255)

                                                                       tacgctaACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATa                                                  <  2:931434/139‑1 (MQ=255)

                                                                               cAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAgcg                                          <  2:1468530/139‑1 (MQ=255)

                                                                                  tGCAGGAGATTGACAGTTTTGAACATCATGGGACAAGAAGTCTGTAGTTTCCGTTATATGTTCAGAGAGGTGTTATAGTTTAACCCATTTCAAGCCCACAGCCGGAGATAGT‑CCCGTGGCGGGCGATAAGCCAggggac                                       >  2:101460/1‑134 (MQ=255)

                                                                                   gCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAGCGCACt                                      <  1:965513/139‑1 (MQ=255)

                                                                                          atTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAGCGCACTATGCGGa                               >  1:150953/1‑139 (MQ=255)

                                                                                              aCAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                                        >  2:6218/1‑63 (MQ=255)

                                                                                              aCAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                                        <  1:6218/63‑1 (MQ=255)

                                                                                                aGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCAt                         <  1:44532/139‑1 (MQ=255)

                                                                                                  ttttGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAAcc                                               <  2:607080/115‑1 (MQ=255)

                                                                                                  ttttGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAAcc                                               >  1:607080/1‑115 (MQ=255)

                                                                                                            catGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAgcg                                          >  2:1416478/1‑110 (MQ=255)

                                                                                                            catGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAgcg                                          <  1:1416478/110‑1 (MQ=255)

                                                                                                             atGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                                        <  2:222152/48‑1 (MQ=255)

                                                                                                             atGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                                        >  1:222152/1‑48 (MQ=255)

                                                                                                                 gACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                           >  1:959860/1‑120 (MQ=255)

                                                                                                                 gACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                           <  2:959860/120‑1 (MQ=255)

                                                                                                                      gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                                        >  2:1555501/1‑39 (MQ=255)

                                                                                                                      gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                                        <  1:1555501/39‑1 (MQ=14)

                                                                                                                      gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                              <  2:1199482/49‑1 (MQ=255)

                                                                                                                      gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                              >  1:1199482/1‑49 (MQ=255)

                                                                                                                      gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTtata                 >  2:1435268/1‑126 (MQ=255)

                                                                                                                      gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTtata                 <  1:1435268/126‑1 (MQ=255)

                                                                                                                      gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCg                                                              <  1:715179/80‑1 (MQ=255)

                                                                                                                      gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCg                                                              >  2:715179/1‑80 (MQ=255)

                                                                                                                      gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAgc                                           <  2:1343052/99‑1 (MQ=25)

                                                                                                                      gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAgc                                           >  1:1343052/1‑99 (MQ=25)

                                                                                                                       aaCCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCctc  >  2:1504578/1‑139 (MQ=18)

GAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATT‑CCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTC  >  NC_000913/1467786‑1468043

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A