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
A2 F3 I0 R2	232	76.3	4135488	90.9%	3759158	60.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,249,224	C→T	7.8%	D17N (GAT→AAT)	ruvB ←	ATP‑dependent DNA helicase, component of RuvABC resolvasome

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,249,224	0	C	T	7.8%	204.7 / 5.7	64	D17N (GAT→AAT)	ruvB	ATP‑dependent DNA helicase, component of RuvABC resolvasome
Reads supporting (aligned to +/- strand): ref base C (33/26); new base T (2/3); total (35/29)
Fisher's exact test for biased strand distribution p-value = 6.51e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCTTCAATCATCCTTTACCTCAT  >  minE/1249154‑1249284

tgtgAACGAACCTGCGGCTGACCAACATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATc                                                              >  1:366561/1‑71 (MQ=255)

  tgAACGAACCTGCGGCTGACCAACATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCtt                                                            >  1:1036812/1‑71 (MQ=255)

             gCGGCTGACCAACATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCaaa                                                    >  1:1092126/1‑68 (MQ=255)

             gCGGCTGACCAACATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAg                                                   >  1:2963657/1‑69 (MQ=255)

                 cTGACCAACATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTAc                                             >  1:979854/1‑71 (MQ=255)

                 cTGACCAACATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTAc                                             >  1:2906836/1‑71 (MQ=255)

                 cTGACCAACATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTAc                                             >  1:2696639/1‑71 (MQ=255)

                    aCCAACATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCgg                                          <  1:3205446/71‑1 (MQ=255)

                    aCCAACATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCgg                                          <  1:2694610/71‑1 (MQ=255)

                      cAACATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCgg                                          >  1:2285127/1‑69 (MQ=255)

                        aCATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCa                                        >  1:893589/1‑69 (MQ=255)

                        aCATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAg                                       >  1:1021977/1‑70 (MQ=255)

                        aCATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAg                                       >  1:956436/1‑70 (MQ=255)

                        aCATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAg                                       >  1:1448931/1‑70 (MQ=255)

                        aCATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAg                                       >  1:858487/1‑70 (MQ=255)

                        aCATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGa                                      <  1:1205684/71‑1 (MQ=255)

                        aCATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGa                                      <  1:3784065/71‑1 (MQ=255)

                        aCATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGa                                      <  1:3242277/71‑1 (MQ=255)

                             ctctTCCAGTAATTTGGGGCGAATTGCGCGATCTGCTACATCTTCCGGCaa                                                     <  1:2044244/51‑1 (MQ=255)

                             ctctTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCaa                                                     <  1:3870452/51‑1 (MQ=255)

                             ctctTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCaa                                                     <  1:421315/51‑1 (MQ=255)

                             ctctTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCaa                                                     <  1:588770/51‑1 (MQ=255)

                             ctctTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCaa                                                     <  1:2701752/51‑1 (MQ=255)

                               catCCAGTAATTTTGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGa                                      <  1:444245/62‑1 (MQ=255)

                                  ccAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACgg                            >  1:417071/1‑71 (MQ=255)

                                  ccAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACgg                            >  1:78105/1‑71 (MQ=255)

                                  ccAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACg                             <  1:3396885/70‑1 (MQ=255)

                                  ccAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACg                             <  1:3266189/70‑1 (MQ=255)

                                  ccAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACg                             <  1:977671/70‑1 (MQ=255)

                                     gTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCaa                                                     <  1:1197626/43‑1 (MQ=255)

                                     gTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCt                         >  1:2211555/1‑71 (MQ=255)

                                     gTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCt                         >  1:3836454/1‑71 (MQ=255)

                                        aTTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCt                      >  1:593851/1‑71 (MQ=255)

                                        aTTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCt                      >  1:211115/1‑71 (MQ=255)

                                        aTTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCt                      >  1:2997514/1‑71 (MQ=255)

                                          ttGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCaaa                                                    >  1:208940/1‑39 (MQ=255)

                                          ttGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCaaa                                                    >  1:4039378/1‑39 (MQ=255)

                                          ttGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCaaa                                                    >  1:1156280/1‑39 (MQ=255)

                                          ttGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCaaa                                                    >  1:1697962/1‑39 (MQ=255)

                                          ttGGGGCGAATGGCCCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGt                           >  1:837909/1‑64 (MQ=255)

                                           tGGGGCGAATGGCGCGATCTGCTACATTTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCTTc                    <  1:2881625/70‑1 (MQ=255)

                                           tGGGGCGAATGGCGCGATCTGCTACATTTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCTTc                    <  1:1725700/70‑1 (MQ=255)

                                           tGGGGCGAATGGCGCGATCTGCTACATTTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCTTc                    <  1:2176564/70‑1 (MQ=255)

                                           tGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCTTc                    <  1:3535511/70‑1 (MQ=255)

                                           tGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCTTc                    <  1:2341814/70‑1 (MQ=255)

                                                  aaTGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGa                               >  1:1205482/1‑52 (MQ=255)

                                                  aaTGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGa                               >  1:17477/1‑52 (MQ=255)

                                                  aaTGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGa                               >  1:3998171/1‑52 (MQ=255)

                                                  aaTGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGa                               >  1:2919856/1‑52 (MQ=255)

                                                  aaTGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGa                               >  1:2853843/1‑52 (MQ=255)

                                                   aTGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTAc                                             >  1:1274793/1‑37 (MQ=255)

                                                   aTGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTAc                                             >  1:131482/1‑37 (MQ=255)

                                                   aTGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTAc                                             >  1:2356805/1‑37 (MQ=255)

                                                   aTGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTAc                                             >  1:479982/1‑37 (MQ=255)

                                                      gcgcGATCTGCTACATTTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCTTCAATCATCCTTTa        >  1:3427844/1‑71 (MQ=255)

                                                      gcgcGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCTTCAATCATCCTTTa        <  1:414418/71‑1 (MQ=255)

                                                           aTCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGa                                      <  1:2866464/36‑1 (MQ=255)

                                                               gCTACATTTTCCGGCAAAGTGGTACCGGCAGAAAt                                   >  1:612542/1‑35 (MQ=255)

                                                                cTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCTTCAATCATCCTTTACCTCAt  <  1:1610586/67‑1 (MQ=255)

                                                                     tCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACg                             <  1:573404/35‑1 (MQ=255)

                                                                     tCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACg                             <  1:556975/35‑1 (MQ=255)

                                                                     tCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACg                             <  1:2793949/35‑1 (MQ=255)

                                                                     tCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACg                             <  1:1188079/35‑1 (MQ=255)

                                                                     tCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACg                             <  1:2917902/35‑1 (MQ=255)

                                                                     tCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACg                             <  1:1052311/35‑1 (MQ=255)

                                                                      cTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCTTCAatca               >  1:2474660/1‑48 (MQ=255)

TGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAGTAATTTGGGGCGAATGGCGCGATCTGCTACATCTTCCGGCAAAGTGGTACCGGCAGAAATCAGACGGTCTGCTTCAATCATCCTTTACCTCAT  >  minE/1249154‑1249284

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A