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
A17 F999 I0 R1	42	139.8	10793925	96.0%	10362168	49.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,850,891	G→A	Q68* (CAA→TAA)	ilvN ←	acetohydroxy acid synthase I subunit IlvN

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,850,891	0	G	A	81.6%	367.0 / 77.5	147	Q68* (CAA→TAA)	ilvN	acetohydroxy acid synthase I subunit IlvN
Reads supporting (aligned to +/- strand): ref base G (12/15); new base A (48/72); total (60/87)
Fisher's exact test for biased strand distribution p-value = 6.72e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.60e-01

Only 100 of 149 total aligned reads displayed.

TCGGACTGATTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTGGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGCCAGA  >  NC_000913/3850842‑3850938

tcggaCTGATTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTg                                                 <  1:4295588/50‑1 (MQ=255)

  ggaCTGATTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGc                                               <  1:609189/50‑1 (MQ=255)

  ggaCTGATTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGc                                               >  2:1658050/1‑50 (MQ=255)

    aCTGATTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCt                                              >  1:679793/1‑49 (MQ=255)

    aCTGATTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCt                                              >  1:807838/1‑49 (MQ=255)

     cTGATTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTa                                            <  1:349781/50‑1 (MQ=255)

     cTGATTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTa                                            <  2:436948/50‑1 (MQ=255)

     cTGATTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTa                                            <  1:2121549/50‑1 (MQ=255)

       gATTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTat                                           >  2:4798189/1‑49 (MQ=255)

        aTTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTGGCTTatca                                         >  1:2499034/1‑50 (MQ=255)

        aTTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTGGCTTatc                                          <  1:736439/49‑1 (MQ=255)

        aTTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTatca                                         >  2:4455658/1‑50 (MQ=255)

        aTTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTatc                                          <  2:1335952/49‑1 (MQ=255)

        aTTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTatc                                          <  2:1809039/49‑1 (MQ=255)

        aTTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTat                                           <  1:2189503/48‑1 (MQ=255)

         ttACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTGGCTTatcat                                        >  2:1066406/1‑50 (MQ=255)

         ttACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTGGCTTatcat                                        >  2:170983/1‑50 (MQ=255)

          tACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTatcatc                                       >  1:3063153/1‑50 (MQ=255)

           aCGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTatcatc                                       <  2:4475293/49‑1 (MQ=255)

           aCGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTatcatc                                       <  1:1245110/49‑1 (MQ=255)

           aCGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTatcatc                                       <  1:1496875/49‑1 (MQ=255)

            cGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTGGCTTATCATCt                                      <  2:2969830/49‑1 (MQ=255)

            cGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTGGCTTATCATCt                                      <  2:2345351/49‑1 (MQ=255)

            cGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCt                                      <  2:532485/49‑1 (MQ=255)

            cGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCt                                      <  1:210120/49‑1 (MQ=255)

             gCTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGc                                    >  2:2737084/1‑50 (MQ=255)

              cTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCt                                   >  1:161491/1‑50 (MQ=255)

              cTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCt                                   <  1:3789147/50‑1 (MQ=255)

              cTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCt                                   >  2:2314343/1‑50 (MQ=255)

              cTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCt                                   <  2:2287728/50‑1 (MQ=255)

              cTGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCt                                   <  1:5023696/50‑1 (MQ=255)

               tGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTc                                  >  1:3406475/1‑50 (MQ=255)

               tGCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTc                                  >  1:4925905/1‑50 (MQ=255)

                gCACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTc                                  >  2:826592/1‑49 (MQ=255)

                 cACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTcc                                 <  1:3182966/49‑1 (MQ=255)

                 cACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTc                                  <  2:1474527/48‑1 (MQ=255)

                 cACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTc                                  >  2:3231183/1‑48 (MQ=255)

                 cACTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCa                                <  1:2072434/50‑1 (MQ=255)

                  aCTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTc                                  >  1:1334618/1‑47 (MQ=255)

                  aCTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAg                               <  1:4904578/50‑1 (MQ=255)

                   cTTTCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGa                              <  2:4920251/50‑1 (MQ=255)

                    tttCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGAc                             >  1:4214060/1‑50 (MQ=255)

                     ttCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACg                            >  2:4498384/1‑50 (MQ=255)

                      tCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGAc                             <  2:4562689/48‑1 (MQ=255)

                      tCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACg                            <  2:3413838/49‑1 (MQ=255)

                      tCACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACg                            <  1:985634/49‑1 (MQ=255)

                       cACGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGc                           <  2:1845392/49‑1 (MQ=255)

                        aCGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCt                          <  2:4970785/49‑1 (MQ=255)

                        aCGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTg                         >  1:2494472/1‑50 (MQ=255)

                        aCGACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTg                         >  1:691558/1‑50 (MQ=255)

                         cGACATCTTCCAGCTTATCGATTTGGCTTATCATCTGCTCCAGACGCTgg                        <  1:5004129/50‑1 (MQ=255)

                         cGACATCTTCCAGCTTATCGATTTGGCTTATCATCTGCTCCAGACGCTgg                        <  2:2806892/50‑1 (MQ=255)

                          gACATCTTCCAGCTTATCGATTTGGCTTATCATCTGCTCCAGACGCTGgt                       >  2:2590086/1‑50 (MQ=255)

                          gACATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGgt                       <  1:1988881/50‑1 (MQ=255)

                           aCATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGgtc                      <  2:4635136/50‑1 (MQ=255)

                           aCATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGgtc                      >  2:3202175/1‑50 (MQ=255)

                            cATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGgtcg                     >  2:2933225/1‑50 (MQ=255)

                            cATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGgtcg                     >  2:3654046/1‑50 (MQ=255)

                            cATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGgtcg                     <  2:3744481/50‑1 (MQ=255)

                            cATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGgtcg                     <  1:966514/50‑1 (MQ=255)

                            cATCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGgtcg                     <  1:473795/50‑1 (MQ=255)

                             aTCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGgtcgt                    <  2:5153426/50‑1 (MQ=255)

                             aTCTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGgtcgt                    <  1:5347005/50‑1 (MQ=255)

                               cTTCCAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCa                  >  2:3080323/1‑50 (MQ=255)

                                  ccAGCTTATCGATTTGGCTTATCATCTGCTCCAGACGCTGgtcgtc                   <  2:4162495/46‑1 (MQ=255)

                                  ccAGCTTATCGATTTGGCTTATCATCTGCTCCAGACGCTGGTCGTCAtt                <  1:2476071/49‑1 (MQ=255)

                                  ccAGCTTATCGATTTGGCTTATCATCTGCTCCAGACGCTGGTCGTCAtt                <  1:3469135/49‑1 (MQ=255)

                                  ccAGCTTATCGATTTGGCTTATCATCTGCTCCAGACGCTGGTCGTCAt                 <  2:2486982/48‑1 (MQ=255)

                                  ccAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGgtcgtc                   <  1:4034640/46‑1 (MQ=255)

                                  ccAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGgtcgtc                   <  1:1803023/46‑1 (MQ=255)

                                  ccAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCa                  <  2:4135977/47‑1 (MQ=255)

                                  ccAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCAtt                <  2:692500/49‑1 (MQ=255)

                                  ccAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCAt                 <  1:1164957/48‑1 (MQ=255)

                                   cAGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGa              >  1:2776107/1‑50 (MQ=255)

                                    aGCTTATCGATTTGGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGAc             <  2:339523/50‑1 (MQ=255)

                                    aGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGAc             <  1:403141/50‑1 (MQ=255)

                                    aGCTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGAc             <  2:3567693/50‑1 (MQ=255)

                                    aGCTAATCGATTTGGCTTAGCATCTGCTCCAGACGCTGGTCGTCATTGAc             <  2:1236969/50‑1 (MQ=255)

                                      cTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGAc             >  1:5309649/1‑48 (MQ=255)

                                      cTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGAc             >  1:4226314/1‑48 (MQ=255)

                                      cTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCa           <  1:3724350/50‑1 (MQ=255)

                                      cTTATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCa           <  2:2688978/50‑1 (MQ=255)

                                       ttATCGATTTGGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAg          >  1:2374132/1‑50 (MQ=255)

                                       ttATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAg          >  1:3963957/1‑50 (MQ=255)

                                        tATCGATTTGGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAg          >  2:299361/1‑49 (MQ=255)

                                        tATCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAg          >  1:4654814/1‑49 (MQ=255)

                                          tCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAg       >  1:2739298/1‑50 (MQ=255)

                                          tCGATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAg       >  1:3029091/1‑50 (MQ=255)

                                            gATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGcc     <  2:4517617/50‑1 (MQ=255)

                                            gATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGcc     <  1:1846250/50‑1 (MQ=255)

                                            gATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGc      >  1:1742888/1‑49 (MQ=255)

                                            gATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGc      >  2:5234521/1‑49 (MQ=255)

                                            gATTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGc      <  2:5256098/49‑1 (MQ=255)

                                             aTTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGc      >  2:4477836/1‑48 (MQ=255)

                                             aTTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGc      >  2:106785/1‑48 (MQ=255)

                                             aTTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGCCa    <  2:3773392/50‑1 (MQ=255)

                                             aTTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGCCa    <  1:3994410/50‑1 (MQ=255)

                                             aTTTAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGCCa    <  2:5039316/50‑1 (MQ=255)

                                              tttAGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGCCAg   <  2:1525915/50‑1 (MQ=255)

                                                tGGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGCCAGa  >  1:4208519/1‑49 (MQ=255)

TCGGACTGATTACGCTGCACTTTCACGACATCTTCCAGCTTATCGATTTGGCTTATCATCTGCTCCAGACGCTGGTCGTCATTGACCAGTAGCCAGA  >  NC_000913/3850842‑3850938

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 17 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A