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
A13 F1 I1 R1	778	68.7	3228504	93.4%	3015422	109.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,246,411	(T)_5→6	coding (9/1191 nt)	malE ←	maltose transporter subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,246,406	1	.	T	100.0%	140.3 / NA	44	T5K (ACA→AAA)	malE	maltose transporter subunit
Reads supporting (aligned to +/- strand): ref base . (0/0); new base T (21/23); total (21/23)

CTTCAGCGAGACCGTTATAGCCTTTATCGCCGTTAATCCAGATTACCAGTTTACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTG‑TTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAACCTCTTTCCATCCTCCTTGCCCCTACGCCCCACCGTCGCTTTGTGTG  >  NC_000913/4246275‑4246536

cTTCATCGAGACCGTTATAGCCTTTATCGCCCTTAATCCAGATTACCAGTTTCCCCTCTTCGATTTTAGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGCATAATGCGAGGATGCGTGCACCTG‑tttttta                                                                                                                             <  1:853983/139‑3 (MQ=255)

cTTCAGCGAGACCGTTATAGCCTTTATCGCCGTTAATCCAGATTACCAGTTTACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTG‑tttttta                                                                                                                             <  1:1160476/139‑3 (MQ=255)

  tCAGCGAGACCGTTATAGCCTTTATCGCCGTTAATCCAGATTACCAGTTTACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTG‑ttttttatt                                                                                                                           <  2:3399/139‑5 (MQ=255)

       gagaCCGTTATAGCCTTTATCGCCGTTAATCCAGATTACCAGTTTACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCAt                                                                                                                       <  1:724207/139‑1 (MQ=255)

                      tttATCGCCGTTAATCCAGATTACCAGTTTACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCttg                                                                                                        <  2:732755/139‑1 (MQ=255)

                        tATCGCCGTTAATCCAGATTACCAGTTTACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCttgtt                                                                                                      >  2:871652/1‑139 (MQ=255)

                              cGTTAATCCAGATTACCAGTTTACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGaa                                                                                                >  2:96390/1‑139 (MQ=255)

                                ttAATCCAGATTACCAGTTTACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCa                                                                                                                        <  2:505868/113‑1 (MQ=255)

                                ttAATCCAGATTACCAGTTTACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCa                                                                                                                        >  1:505868/1‑113 (MQ=255)

                                         aTTACCAGTTTACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGaa                                                                                     <  2:164416/139‑1 (MQ=255)

                                                  ttACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTG‑tttttta                                                                                                                             >  2:943074/1‑87 (MQ=255)

                                                  ttACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTG‑tttttta                                                                                                                             <  1:943074/89‑3 (MQ=255)

                                                   tACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGt                                                                                                             <  1:84689/105‑1 (MQ=255)

                                                   tACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGt                                                                                                             >  2:84689/1‑105 (MQ=255)

                                                   tACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTaaa                                                                           <  2:256526/139‑1 (MQ=255)

                                                   tACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTaaa                                                                           <  2:289155/139‑1 (MQ=255)

                                                   tACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTaaa                                                                           >  2:1266108/1‑139 (MQ=255)

                                                          ttcGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTc                                                                                                                         <  2:196193/86‑1 (MQ=255)

                                                          ttcGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTc                                                                                                                         >  1:196193/1‑86 (MQ=255)

                                                           tcGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGActct                                                                   >  1:53658/1‑139 (MQ=255)

                                                           tcGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTG‑tttttta                                                                                                                             <  1:1557694/80‑3 (MQ=255)

                                                           tcGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTG‑tttttta                                                                                                                             >  2:1557694/1‑78 (MQ=255)

                                                             gATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAg                                                                 <  2:397879/139‑1 (MQ=255)

                                                                  tGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTG‑tttttta                                                                                                                             <  2:1180712/73‑3 (MQ=255)

                                                                  tGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTG‑tttttta                                                                                                                             >  1:1180712/1‑71 (MQ=255)

                                                                     cGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTta                                                         <  1:871652/139‑1 (MQ=255)

                                                                         agCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTtat                                                        >  2:910908/1‑136 (MQ=255)

                                                                         agCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTtat                                                        <  1:910908/136‑1 (MQ=255)

                                                                              aGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAAc                                                <  1:1266108/139‑1 (MQ=255)

                                                                                  ggAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAACctct                                            <  2:53658/139‑1 (MQ=255)

                                                                                          tcatcGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAg                                                                 <  2:1193995/110‑1 (MQ=255)

                                                                                          tcatcGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAg                                                                 >  1:1193995/1‑110 (MQ=255)

                                                                                          tcatcGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAACctct                                            <  1:171334/131‑1 (MQ=255)

                                                                                          tcatcGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAACctct                                            >  2:171334/1‑131 (MQ=255)

                                                                                                        gCGGATAATGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAACCTCTTTCCATCCTCCTTGCCCCTACg                      >  1:1505377/1‑139 (MQ=255)

                                                                                                                tGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGttt                                                              <  2:97902/91‑1 (MQ=255)

                                                                                                                tGCGAGGATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGttt                                                              >  1:97902/1‑91 (MQ=255)

                                                                                                                     ggATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTaaa                                                                           >  2:318678/1‑73 (MQ=255)

                                                                                                                     ggATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTaaa                                                                           <  1:318678/73‑1 (MQ=255)

                                                                                                                      gATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACgg                                                    <  2:588213/95‑1 (MQ=255)

                                                                                                                      gATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACgg                                                    >  1:588213/1‑95 (MQ=255)

                                                                                                                      gATGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAACCTCTTTCCATCCTCCTTGCCCCTACGCCCCACCGTCGCtt        <  1:96390/139‑1 (MQ=255)

                                                                                                                        tGCGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAACCTCTTTCCATCCTCCTTGCCCCTACGCCCCACCGTCGCTTtg      >  1:1314518/1‑139 (MQ=255)

                                                                                                                          cGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGaa                                                                                                >  1:875393/1‑47 (MQ=255)

                                                                                                                          cGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGaa                                                                                                <  2:875393/47‑1 (MQ=255)

                                                                                                                          cGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAg                                                                 <  1:1260888/78‑1 (MQ=255)

                                                                                                                          cGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAg                                                                 >  2:1260888/1‑78 (MQ=255)

                                                                                                                          cGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAACCTCTTTCCATCCTCCTTGCCCCTACGCCCCAcc               >  1:593431/1‑128 (MQ=255)

                                                                                                                          cGTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAACCTCTTTCCATCCTCCTTGCCCCTACGCCCCAcc               <  2:593431/128‑1 (MQ=255)

                                                                                                                           gTGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAACCTCTTTCCATCCTCCTTGCCCCTACGCCCCACCGTCGCTTtgtgt   >  1:33486/1‑139 (MQ=255)

                                                                                                                            tGCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAACCTCTTTCCATCCTCCTTGCCCCTACGCCCCACCGTCGCTTtgtgtg  >  1:580040/1‑139 (MQ=255)

                                                                                                                             gCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACAcc                                                                               >  2:653536/1‑61 (MQ=255)

                                                                                                                             gCACCTGTTTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACAcc                                                                               <  1:653536/61‑1 (MQ=255)

CTTCAGCGAGACCGTTATAGCCTTTATCGCCGTTAATCCAGATTACCAGTTTACCTTCTTCGATTTTGGCGAGAGCCGAGGCGGAAAACATCATCGTCGTTAATGCGGATAATGCGAGGATGCGTGCACCTG‑TTTTTATTTTCATAATCTATGGTCCTTGTTGGTGAAGTGCTCGTGAAAACACCTAAACGGACTCTAGTTTCTTTATACGGCAACCTCTTTCCATCCTCCTTGCCCCTACGCCCCACCGTCGCTTTGTGTG  >  NC_000913/4246275‑4246536

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