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	59	52.6	2411032	94.1%	2268781	113.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,464,087	A→T	I56F (ATC→TTC)	gspL →	general secretory pathway component, cryptic

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,464,087	0	A	T	100.0%	221.9 / NA	63	I56F (ATC→TTC)	gspL	general secretory pathway component, cryptic
Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (27/36); total (27/36)

CTCGACGCTGCGTAAGCATTGGGAATGGATGACGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGATCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACAATGGCTGGCAGAGGAGACGTTACCCGACAACACCCAGGACTGGCACTGGACGGTT  >  NC_000913/3463954‑3464218

cTCGACGCTGCGTAAGCATTGGGAATGGATGACGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCcca                                                                                                                                >  2:326172/1‑139 (MQ=255)

       cTGCGTAAGCATTGGGAATGGATGACGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAgg                                                                                                                         <  1:483790/139‑1 (MQ=255)

       cTGCGTAAGCATTGGGAATGGATGACGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAgg                                                                                                                         >  2:705825/1‑139 (MQ=255)

       cTGCGTAAGCATTGGGAATGGATGACGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAgg                                                                                                                         <  1:87428/139‑1 (MQ=255)

        tGCGTAAGCATTGGGAATGGATGACGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAggg                                                                                                                        <  1:705825/139‑1 (MQ=255)

                cATTGGGAATGGATGACGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTtat                                                                                                                <  1:539023/139‑1 (MQ=255)

                    gggAATGGATGACGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCg                                                                                                            >  2:478443/1‑139 (MQ=255)

                    gggAATGGATGACGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCg                                                                                                            <  2:1110695/139‑1 (MQ=255)

                           gATGACGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTc                                                                                                     >  2:333853/1‑139 (MQ=255)

                              gACGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACg                                                                                                  <  1:378518/139‑1 (MQ=255)

                               aCGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGc                                                                                                 >  1:688581/1‑139 (MQ=255)

                                cGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTATGTTCCCACCAGAGGGCCtt                                                                                                                    >  2:341/1‑119 (MQ=255)

                                cGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTATGTTCCCACCAGAGGGCCtt                                                                                                                    <  1:341/119‑1 (MQ=255)

                                   tctcCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGcc                                                                                             <  1:471539/139‑1 (MQ=255)

                                     tcCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGCAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCa                                                                                           >  1:374514/1‑139 (MQ=255)

                                     tcCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCa                                                                                           <  2:376401/139‑1 (MQ=255)

                                     tcCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCa                                                                                           <  1:478443/139‑1 (MQ=255)

                                         cAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGc                                                                                       <  2:688581/139‑1 (MQ=255)

                                           gATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCa                                                                                     <  1:742346/139‑1 (MQ=255)

                                           gATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCa                                                                                     <  2:935594/139‑1 (MQ=255)

                                           gATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCa                                                                                     >  2:970911/1‑139 (MQ=255)

                                           gATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCa                                                                                     <  1:7797/139‑1 (MQ=255)

                                           gATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCa                                                                                     <  1:147338/139‑1 (MQ=255)

                                                      ttCGGTACATACGCTCAGGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTc                                                                          >  1:755974/1‑139 (MQ=255)

                                                       tCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTcc                                                                         <  2:755974/139‑2 (MQ=255)

                                                       tCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCa                                                                         <  1:136148/139‑1 (MQ=255)

                                                       tCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCa                                                                         >  1:1117909/1‑139 (MQ=255)

                                                       tCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCa                                                                         <  1:82878/139‑1 (MQ=255)

                                                        cGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCa                                                                                     >  1:626778/1‑126 (MQ=255)

                                                        cGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCa                                                                                     <  2:626778/126‑1 (MQ=255)

                                                        cGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCAc                                                                        >  1:577110/1‑139 (MQ=255)

                                                        cGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCAGTGCCGGAAATGTTCATCTTTTGTTCCCACCaga                                                                                                                           <  2:891753/88‑1 (MQ=255)

                                                        cGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCAGTGCCGGAAATGTTCATCTTTTGTTCCCACCaga                                                                                                                           >  1:891753/1‑88 (MQ=255)

                                                          gTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCg                                                                      >  1:932659/1‑139 (MQ=255)

                                                           tACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGc                                                                     <  1:932253/139‑1 (MQ=255)

                                                           tACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGc                                                                     <  1:326172/139‑1 (MQ=255)

                                                             cATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGcac                                                                   <  1:1174368/139‑1 (MQ=255)

                                                             cATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATC‑TTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGcaca                                                                  <  1:705788/139‑1 (MQ=255)

                                                              aTACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGcaca                                                                  <  2:577110/139‑1 (MQ=255)

                                                                  gCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACa                                                              >  2:715939/1‑139 (MQ=255)

                                                                  gCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACa                                                              >  2:436844/1‑139 (MQ=255)

                                                                  gCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCGTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCACACAAACa                                                              >  1:717733/1‑139 (MQ=255)

                                                                     cACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTa                                                           >  2:1062192/1‑139 (MQ=255)

                                                                     cACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTACCCAACGCCAAATACAAACTCACCGCACAAACATTa                                                           >  1:387864/1‑139 (MQ=255)

                                                                       cGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACa                                                         <  2:649961/139‑1 (MQ=255)

                                                                       cGGACGATCTTCCGCTGGAGTCGCT‑GCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAgg                                                                                                                         >  1:1179304/1‑74 (MQ=255)

                                                                       cGGACGATCTTCCGCTGGAGTCGCT‑GCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAgg                                                                                                                         <  2:1179304/74‑1 (MQ=255)

                                                                            gaacTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACAAtggc                                                    >  1:1104722/4‑139 (MQ=255)

                                                                                    gCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACAATGGCTGGCagag                                            <  2:1117909/139‑1 (MQ=255)

                                                                                          gTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCtt                                                                                                                    >  2:1148804/1‑61 (MQ=255)

                                                                                          gTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCtt                                                                                                                    <  1:1148804/61‑1 (MQ=255)

                                                                                             gCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAggg                                                                                                                        >  2:56696/1‑54 (MQ=255)

                                                                                             gCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAggg                                                                                                                        <  1:56696/54‑1 (MQ=255)

                                                                                                     aTCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACg                                                                                                  >  2:361367/1‑68 (MQ=255)

                                                                                                     aTCAGCCCGGTGCCGGAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACg                                                                                                  <  1:361367/68‑1 (MQ=255)

                                                                                                                    gAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACAATGGCTGGCAGAGGAGACGTTACCCGACAACACCCAGGACTGGCa            >  1:297287/1‑139 (MQ=255)

                                                                                                                    gAAATGTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACAATGGCTGGCAGAGGAGACGTTACCCGACAACACCCAGGACTGGCa            >  1:1041337/1‑139 (MQ=255)

                                                                                                                         gTTCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACAATGGCTGGCAGAGGAGACGTTACCCGACAACACCCAGGACTGGCACTGGa       <  2:1127813/139‑1 (MQ=255)

                                                                                                                          ttCATCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACAATGGCTGGCAGAGGAGACGTTACCCGACAACACCCAGGACTGGCACTGGAc      <  1:715939/139‑1 (MQ=255)

                                                                                                                             aTCTTTTGTTCCTACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACAATGGCTGGCAGAGGAGACGTTACCCGACAACACCCAGGACTGGCACTGGACGGt   <  2:618940/139‑1 (MQ=255)

                                                                                                                              tCTTTTGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACAATGGCTGGCAGAGGAGACGTTACCCGACAACACCCAGGACTGGCACTGGACGGtt  <  1:333853/139‑1 (MQ=255)

                                                                                                                                 tttGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACAATGGCTGGCAgagg                                           <  1:1183534/95‑1 (MQ=255)

                                                                                                                                 tttGTTCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACAATGGCTGGCAgagg                                           >  2:1183534/1‑95 (MQ=255)

CTCGACGCTGCGTAAGCATTGGGAATGGATGACGTTCTCCGCAGATAGCGTATCTTCGGTACATACGCTCACGGACGATCTTCCGCTGGAGTCGCTGGCCGATCAGCCCGGTGCCGGAAATGTTCATCTTTTGATCCCACCAGAGGGCCTTTTATATCGTTCCCTCACGCTGCCCAACGCCAAATACAAACTCACCGCACAAACATTACAATGGCTGGCAGAGGAGACGTTACCCGACAACACCCAGGACTGGCACTGGACGGTT  >  NC_000913/3463954‑3464218

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `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